diff --git a/Upgrade.hs b/Upgrade.hs
index fed76d838e..457fab180b 100644
--- a/Upgrade.hs
+++ b/Upgrade.hs
@@ -15,7 +15,6 @@ import qualified Git
 import Annex.Version
 import Types.RepoVersion
 #ifndef mingw32_HOST_OS
-{-
 import qualified Upgrade.V0
 import qualified Upgrade.V1
 #endif
@@ -24,7 +23,6 @@ import qualified Upgrade.V3
 import qualified Upgrade.V4
 import qualified Upgrade.V5
 import qualified Upgrade.V6
--}
 
 import qualified Data.Map as M
 
@@ -74,7 +72,6 @@ upgrade automatic destversion = do
 			)
 	go _ = return True
 
-{-
 #ifndef mingw32_HOST_OS
 	up (RepoVersion 0) = Upgrade.V0.upgrade
 	up (RepoVersion 1) = Upgrade.V1.upgrade
@@ -87,6 +84,4 @@ upgrade automatic destversion = do
 	up (RepoVersion 4) = Upgrade.V4.upgrade automatic
 	up (RepoVersion 5) = Upgrade.V5.upgrade automatic
 	up (RepoVersion 6) = Upgrade.V6.upgrade automatic
--}
 	up _ = return True
-
diff --git a/Upgrade/V1.hs b/Upgrade/V1.hs
index 0d41dde2a5..fd46108dd5 100644
--- a/Upgrade/V1.hs
+++ b/Upgrade/V1.hs
@@ -84,8 +84,8 @@ updateSymlinks :: Annex ()
 updateSymlinks = do
 	showAction "updating symlinks"
 	top <- fromRepo Git.repoPath
-	(files, cleanup) <- inRepo $ LsFiles.inRepo [top]
-	forM_ files fixlink
+	(files, cleanup) <- inRepo $ LsFiles.inRepo [toRawFilePath top]
+	forM_ files (fixlink . fromRawFilePath)
 	void $ liftIO cleanup
   where
 	fixlink f = do
diff --git a/Upgrade/V2.hs b/Upgrade/V2.hs
index ffac8e49aa..9b29783e9d 100644
--- a/Upgrade/V2.hs
+++ b/Upgrade/V2.hs
@@ -50,7 +50,7 @@ upgrade = do
 	e <- liftIO $ doesDirectoryExist old
 	when e $ do
 		config <- Annex.getGitConfig
-		mapM_ (\(k, f) -> inject f $ locationLogFile config k) =<< locationLogs
+		mapM_ (\(k, f) -> inject f $ fromRawFilePath $ locationLogFile config k) =<< locationLogs
 		mapM_ (\f -> inject f f) =<< logFiles old
 
 	saveState False
@@ -76,13 +76,13 @@ locationLogs = do
   where
 	tryDirContents d = catchDefaultIO [] $ dirContents d
 	islogfile f = maybe Nothing (\k -> Just (k, f)) $
-			locationLogFileKey f
+			locationLogFileKey (toRawFilePath f)
 
 inject :: FilePath -> FilePath -> Annex ()
 inject source dest = do
 	old <- fromRepo olddir
 	new <- liftIO (readFile $ old </> source)
-	Annex.Branch.change dest $ \prev -> 
+	Annex.Branch.change (toRawFilePath dest) $ \prev -> 
 		encodeBL $ unlines $ nub $ lines (decodeBL prev) ++ lines new
 
 logFiles :: FilePath -> Annex [FilePath]
diff --git a/Upgrade/V5.hs b/Upgrade/V5.hs
index 5d331c8787..ba897399f2 100644
--- a/Upgrade/V5.hs
+++ b/Upgrade/V5.hs
@@ -5,6 +5,8 @@
  - Licensed under the GNU AGPL version 3 or higher.
  -}
 
+{-# LANGUAGE OverloadedStrings #-}
+
 module Upgrade.V5 where
 
 import Annex.Common
@@ -106,7 +108,7 @@ convertDirect = do
 upgradeDirectWorkTree :: Annex ()
 upgradeDirectWorkTree = do
 	top <- fromRepo Git.repoPath
-	(l, clean) <- inRepo $ Git.LsFiles.stagedDetails [top]
+	(l, clean) <- inRepo $ Git.LsFiles.stagedDetails [toRawFilePath top]
 	forM_ l go
 	void $ liftIO clean
   where
@@ -119,11 +121,11 @@ upgradeDirectWorkTree = do
 			Just k -> do
 				stagePointerFile f Nothing =<< hashPointerFile k
 				ifM (isJust <$> getAnnexLinkTarget f)
-					( writepointer f k
-					, fromdirect f k
+					( writepointer (fromRawFilePath f) k
+					, fromdirect (fromRawFilePath f) k
 					)
 				Database.Keys.addAssociatedFile k
-					=<< inRepo (toTopFilePath f)
+					=<< inRepo (toTopFilePath (fromRawFilePath f))
 	go _ = noop
 
 	fromdirect f k = ifM (Direct.goodContent k f)