diff --git a/CmdLine/Seek.hs b/CmdLine/Seek.hs
index 89a13a96a0..42ab541a96 100644
--- a/CmdLine/Seek.hs
+++ b/CmdLine/Seek.hs
@@ -39,6 +39,7 @@ import Annex.Content
 import Annex.Link
 import Annex.InodeSentinal
 import Annex.Concurrent
+import Annex.CheckIgnore
 import qualified Annex.Branch
 import qualified Annex.BranchState
 import qualified Database.Keys
@@ -81,11 +82,12 @@ withFilesInGitAnnexNonRecursive ww needforce a (WorkTreeItems l) = ifM (Annex.ge
 			_ -> giveup needforce
 withFilesInGitAnnexNonRecursive _ _ _ NoWorkTreeItems = noop
 
-withFilesNotInGit :: WarnUnmatchWhen -> ((SeekInput, RawFilePath) -> CommandSeek) -> WorkTreeItems -> CommandSeek
-withFilesNotInGit ww a l = do
+withFilesNotInGit :: CheckGitIgnore -> WarnUnmatchWhen -> ((SeekInput, RawFilePath) -> CommandSeek) -> WorkTreeItems -> CommandSeek
+withFilesNotInGit (CheckGitIgnore ci) ww a l = do
 	force <- Annex.getState Annex.force
+	let include_ignored = force || not ci
 	seekFiltered a $
-		seekHelper id ww (const $ LsFiles.notInRepo [] force) l
+		seekHelper id ww (const $ LsFiles.notInRepo [] include_ignored) l
 
 withPathContents :: ((FilePath, FilePath) -> CommandSeek) -> CmdParams -> CommandSeek
 withPathContents a params = do
diff --git a/Command/Add.hs b/Command/Add.hs
index d222e4e678..e42b71e0eb 100644
--- a/Command/Add.hs
+++ b/Command/Add.hs
@@ -98,7 +98,7 @@ seek o = startConcurrency commandStages $ do
 			l <- workTreeItems ww (addThese o)
 			let go a = a ww (commandAction . gofile) l
 			unless (updateOnly o) $
-				go withFilesNotInGit
+				go (withFilesNotInGit (checkGitIgnoreOption o))
 			go withFilesMaybeModified
 			go withUnmodifiedUnlockedPointers
 
diff --git a/Command/Uninit.hs b/Command/Uninit.hs
index 5464849197..de05febbaf 100644
--- a/Command/Uninit.hs
+++ b/Command/Uninit.hs
@@ -16,6 +16,7 @@ import qualified Annex.Branch
 import qualified Database.Keys
 import Annex.Content
 import Annex.Init
+import Annex.CheckIgnore
 import Utility.FileMode
 import qualified Utility.RawFilePath as R
 
@@ -42,7 +43,11 @@ check = do
 seek :: CmdParams -> CommandSeek
 seek ps = do
 	l <- workTreeItems ww ps
-	withFilesNotInGit WarnUnmatchWorkTreeItems (\(_, f) -> commandAction $ whenAnnexed (startCheckIncomplete . fromRawFilePath) f) l
+	withFilesNotInGit
+		(CheckGitIgnore False)
+		WarnUnmatchWorkTreeItems 
+		(\(_, f) -> commandAction $ whenAnnexed (startCheckIncomplete . fromRawFilePath) f)
+		l
 	Annex.changeState $ \s -> s { Annex.fast = True }
 	withFilesInGitAnnex ww Command.Unannex.seeker l
 	finish