diff --git a/lib/private/Repair.php b/lib/private/Repair.php
index 1fd204fcd8..96731fa9df 100644
--- a/lib/private/Repair.php
+++ b/lib/private/Repair.php
@@ -36,6 +36,7 @@ use OC\Repair\DropOldJobs;
 use OC\Repair\OldGroupMembershipShares;
 use OC\Repair\RemoveGetETagEntries;
 use OC\Repair\RemoveOldShares;
+use OC\Repair\RemoveRootShares;
 use OC\Repair\SharePropagation;
 use OC\Repair\SqliteAutoincrement;
 use OC\Repair\DropOldTables;
@@ -136,6 +137,7 @@ class Repair implements IOutput{
 			new SharePropagation(\OC::$server->getConfig()),
 			new RemoveOldShares(\OC::$server->getDatabaseConnection()),
 			new AvatarPermissions(\OC::$server->getDatabaseConnection()),
+			new RemoveRootShares(\OC::$server->getDatabaseConnection(), \OC::$server->getUserManager(), \OC::$server->getRootFolder()),
 		];
 	}
 
diff --git a/lib/private/Repair/RemoveRootShares.php b/lib/private/Repair/RemoveRootShares.php
new file mode 100644
index 0000000000..89f797e3ef
--- /dev/null
+++ b/lib/private/Repair/RemoveRootShares.php
@@ -0,0 +1,157 @@
+<?php
+/**
+ * @author Roeland Jago Douma <rullzer@owncloud.com>
+ *
+ * @copyright Copyright (c) 2016, ownCloud, Inc.
+ * @license AGPL-3.0
+ *
+ * This code is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Affero General Public License, version 3,
+ * as published by the Free Software Foundation.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU Affero General Public License for more details.
+ *
+ * You should have received a copy of the GNU Affero General Public License, version 3,
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>
+ *
+ */
+namespace OC\Repair;
+
+use OCP\Files\IRootFolder;
+use OCP\IDBConnection;
+use OCP\IUser;
+use OCP\IUserManager;
+use OCP\Migration\IOutput;
+use OCP\Migration\IRepairStep;
+
+/**
+ * Class RemoveRootShares
+ *
+ * @package OC\Repair
+ */
+class RemoveRootShares implements IRepairStep {
+
+	/** @var IDBConnection */
+	protected $connection;
+
+	/** @var IUserManager */
+	protected $userManager;
+
+	/** @var IRootFolder */
+	protected $rootFolder;
+
+	/**
+	 * RemoveRootShares constructor.
+	 *
+	 * @param IDBConnection $connection
+	 * @param IUserManager $userManager
+	 * @param IRootFolder $rootFolder
+	 */
+	public function __construct(IDBConnection $connection,
+								IUserManager $userManager,
+								IRootFolder $rootFolder) {
+		$this->connection = $connection;
+		$this->userManager = $userManager;
+		$this->rootFolder = $rootFolder;
+	}
+
+	/**
+	 * @return string
+	 */
+	public function getName() {
+		return 'Remove shares of a users root folder';
+	}
+
+	/**
+	 * @param IOutput $output
+	 */
+	public function run(IOutput $output) {
+		if ($this->rootSharesExist()) {
+			$this->removeRootShares($output);
+		}
+	}
+
+	/**
+	 * @param IOutput $output
+	 */
+	private function removeRootShares(IOutput $output) {
+		$function = function(IUser $user) use ($output) {
+			$userFolder = $this->rootFolder->getUserFolder($user->getUID());
+			$fileId = $userFolder->getId();
+
+			$qb = $this->connection->getQueryBuilder();
+			$qb->delete('share')
+				->where($qb->expr()->eq('file_source', $qb->createNamedParameter($fileId)))
+				->andWhere($qb->expr()->orX(
+					$qb->expr()->eq('item_type', $qb->expr()->literal('file')),
+					$qb->expr()->eq('item_type', $qb->expr()->literal('folder'))
+				));
+
+			$qb->execute();
+
+			$output->advance();
+		};
+
+		$userCount = $this->countUsers();
+		$output->startProgress($userCount);
+
+		$this->userManager->callForAllUsers($function);
+
+		$output->finishProgress();
+	}
+
+	/**
+	 * Count all the users
+	 *
+	 * @return int
+	 */
+	private function countUsers() {
+		$allCount = $this->userManager->countUsers();
+
+		$totalCount = 0;
+		foreach ($allCount as $backend => $count) {
+			$totalCount += $count;
+		}
+
+		return $totalCount;
+	}
+
+	/**
+	 * Verify if this repair steps is required
+	 * It *should* not be necessary in most cases and it can be very
+	 * costly.
+	 *
+	 * @return bool
+	 */
+	private function rootSharesExist() {
+		$qb = $this->connection->getQueryBuilder();
+		$qb2 = $this->connection->getQueryBuilder();
+
+		$qb->select('fileid')
+			->from('filecache')
+			->where($qb->expr()->eq('path', $qb->expr()->literal('files')));
+
+		$qb2->select('id')
+			->from('share')
+			->where($qb2->expr()->in('file_source', $qb2->createFunction($qb->getSQL())))
+			->andWhere($qb2->expr()->orX(
+				$qb2->expr()->eq('item_type', $qb->expr()->literal('file')),
+				$qb2->expr()->eq('item_type', $qb->expr()->literal('folder'))
+			))
+			->setMaxResults(1);
+
+		$cursor = $qb2->execute();
+		$data = $cursor->fetch();
+		$cursor->closeCursor();
+
+		if ($data === false) {
+			return false;
+		}
+
+		return true;
+	}
+}
+
diff --git a/tests/lib/Repair/RemoveRootSharesTest.php b/tests/lib/Repair/RemoveRootSharesTest.php
new file mode 100644
index 0000000000..bf255fc7e9
--- /dev/null
+++ b/tests/lib/Repair/RemoveRootSharesTest.php
@@ -0,0 +1,194 @@
+<?php
+/**
+ * @author Roeland Jago Douma <rullzer@owncloud.com>
+ *
+ * @copyright Copyright (c) 2016, ownCloud, Inc.
+ * @license AGPL-3.0
+ *
+ * This code is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Affero General Public License, version 3,
+ * as published by the Free Software Foundation.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU Affero General Public License for more details.
+ *
+ * You should have received a copy of the GNU Affero General Public License, version 3,
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>
+ *
+ */
+namespace Test\Repair;
+
+use OC\Repair\RemoveRootShares;
+use OCP\Files\IRootFolder;
+use OCP\IDBConnection;
+use OCP\IUserManager;
+use OCP\Migration\IOutput;
+use Test\Traits\UserTrait;
+
+/**
+ * Class RemoveOldSharesTest
+ *
+ * @package Test\Repair
+ * @group DB
+ */
+class RemoveRootSharesTest extends \Test\TestCase {
+	use UserTrait;
+
+	/** @var RemoveRootShares */
+	protected $repair;
+
+	/** @var IDBConnection */
+	protected $connection;
+
+	/** @var IOutput */
+	private $outputMock;
+
+	/** @var IUserManager */
+	private $userManager;
+
+	/** @var IRootFolder */
+	private $rootFolder;
+
+	protected function setUp() {
+		parent::setUp();
+
+		$this->outputMock = $this->getMockBuilder('\OCP\Migration\IOutput')
+			->disableOriginalConstructor()
+			->getMock();
+
+		$this->userManager = \OC::$server->getUserManager();
+		$this->rootFolder = \OC::$server->getRootFolder();
+
+		$this->connection = \OC::$server->getDatabaseConnection();
+		$this->repair = new RemoveRootShares($this->connection, $this->userManager, $this->rootFolder);
+	}
+
+	protected function tearDown() {
+		$qb = $this->connection->getQueryBuilder();
+		$qb->delete('share');
+		$qb->execute();
+
+		return parent::tearDown();
+	}
+
+	public function testRootSharesExist() {
+		//Add test user
+		$user = $this->userManager->createUser('test', 'test');
+		$userFolder = $this->rootFolder->getUserFolder('test');
+		$fileId = $userFolder->getId();
+
+		//Now insert cyclic share
+		$qb = $this->connection->getQueryBuilder();
+		$qb->insert('share')
+			->values([
+				'share_type'  => $qb->createNamedParameter(0),
+				'share_with'  => $qb->createNamedParameter('foo'),
+				'uid_owner'   => $qb->createNamedParameter('owner'),
+				'item_type'   => $qb->createNamedParameter('file'),
+				'item_source' => $qb->createNamedParameter($fileId),
+				'item_target' => $qb->createNamedParameter('/target'),
+				'file_source' => $qb->createNamedParameter($fileId),
+				'file_target' => $qb->createNamedParameter('/target'),
+				'permissions' => $qb->createNamedParameter(1),
+			]);
+		$qb->execute();
+
+		$res = $this->invokePrivate($this->repair, 'rootSharesExist', []);
+		$this->assertTrue($res);
+
+		$user->delete();
+	}
+
+	public function testRootSharesDontExist() {
+		//Add test user
+		$user = $this->userManager->createUser('test', 'test');
+		$userFolder = $this->rootFolder->getUserFolder('test');
+		$fileId = $userFolder->getId();
+
+		//Now insert cyclic share
+		$qb = $this->connection->getQueryBuilder();
+		$qb->insert('share')
+			->values([
+				'share_type'  => $qb->createNamedParameter(0),
+				'share_with'  => $qb->createNamedParameter('foo'),
+				'uid_owner'   => $qb->createNamedParameter('owner'),
+				'item_type'   => $qb->createNamedParameter('file'),
+				'item_source' => $qb->createNamedParameter($fileId+1),
+				'item_target' => $qb->createNamedParameter('/target'),
+				'file_source' => $qb->createNamedParameter($fileId+1),
+				'file_target' => $qb->createNamedParameter('/target'),
+				'permissions' => $qb->createNamedParameter(1),
+			]);
+		$qb->execute();
+
+		$res = $this->invokePrivate($this->repair, 'rootSharesExist', []);
+		$this->assertFalse($res);
+
+		$user->delete();
+	}
+
+	public function testRun() {
+		//Add test user
+		$user1 = $this->userManager->createUser('test1', 'test1');
+		$userFolder = $this->rootFolder->getUserFolder('test1');
+		$fileId = $userFolder->getId();
+
+		//Now insert cyclic share
+		$qb = $this->connection->getQueryBuilder();
+		$qb->insert('share')
+			->values([
+				'share_type'  => $qb->createNamedParameter(0),
+				'share_with'  => $qb->createNamedParameter('foo'),
+				'uid_owner'   => $qb->createNamedParameter('owner'),
+				'item_type'   => $qb->createNamedParameter('file'),
+				'item_source' => $qb->createNamedParameter($fileId),
+				'item_target' => $qb->createNamedParameter('/target'),
+				'file_source' => $qb->createNamedParameter($fileId),
+				'file_target' => $qb->createNamedParameter('/target'),
+				'permissions' => $qb->createNamedParameter(1),
+			]);
+		$qb->execute();
+
+		//Add test user
+		$user2 = $this->userManager->createUser('test2', 'test2');
+		$userFolder = $this->rootFolder->getUserFolder('test2');
+		$folder = $userFolder->newFolder('foo');
+		$fileId = $folder->getId();
+
+		//Now insert cyclic share
+		$qb = $this->connection->getQueryBuilder();
+		$qb->insert('share')
+			->values([
+				'share_type'  => $qb->createNamedParameter(0),
+				'share_with'  => $qb->createNamedParameter('foo'),
+				'uid_owner'   => $qb->createNamedParameter('owner'),
+				'item_type'   => $qb->createNamedParameter('file'),
+				'item_source' => $qb->createNamedParameter($fileId),
+				'item_target' => $qb->createNamedParameter('/target'),
+				'file_source' => $qb->createNamedParameter($fileId),
+				'file_target' => $qb->createNamedParameter('/target'),
+				'permissions' => $qb->createNamedParameter(1),
+			]);
+		$qb->execute();
+
+		$this->repair->run($this->outputMock);
+
+		//Verify
+		$qb = $this->connection->getQueryBuilder();
+		$qb->selectAlias($qb->createFunction('COUNT(*)'), 'count')
+			->from('share');
+
+		$cursor = $qb->execute();
+		$data = $cursor->fetch();
+		$cursor->closeCursor();
+
+		$count = (int)$data['count'];
+
+		$this->assertEquals(1, $count);
+
+		$user1->delete();
+		$user2->delete();
+	}
+}