diff --git a/models/repo/repo.go b/models/repo/repo.go
index 2977dfb9f1d8a..1c6612cff37ba 100644
--- a/models/repo/repo.go
+++ b/models/repo/repo.go
@@ -232,6 +232,8 @@ func (sr StorageRepo) RelativePath() string {
 	return string(sr)
 }
 
+// WikiStorageRepo returns the storage repo for the wiki
+// The wiki repository should have the same object format as the code repository
 func (repo *Repository) WikiStorageRepo() StorageRepo {
 	return StorageRepo(strings.ToLower(repo.OwnerName) + "/" + strings.ToLower(repo.Name) + ".wiki.git")
 }
diff --git a/modules/git/fsck.go b/modules/git/fsck.go
deleted file mode 100644
index a52684c84fffe..0000000000000
--- a/modules/git/fsck.go
+++ /dev/null
@@ -1,14 +0,0 @@
-// Copyright 2024 The Gitea Authors. All rights reserved.
-// SPDX-License-Identifier: MIT
-
-package git
-
-import (
-	"context"
-	"time"
-)
-
-// Fsck verifies the connectivity and validity of the objects in the database
-func Fsck(ctx context.Context, repoPath string, timeout time.Duration, args TrustedCmdArgs) error {
-	return NewCommand("fsck").AddArguments(args...).Run(ctx, &RunOpts{Timeout: timeout, Dir: repoPath})
-}
diff --git a/modules/gitrepo/fsck.go b/modules/gitrepo/fsck.go
new file mode 100644
index 0000000000000..bcec6aa03f1ec
--- /dev/null
+++ b/modules/gitrepo/fsck.go
@@ -0,0 +1,16 @@
+// Copyright 2024 The Gitea Authors. All rights reserved.
+// SPDX-License-Identifier: MIT
+
+package gitrepo
+
+import (
+	"context"
+	"time"
+
+	"code.gitea.io/gitea/modules/git"
+)
+
+// Fsck verifies the connectivity and validity of the objects in the database
+func Fsck(ctx context.Context, repo Repository, timeout time.Duration, args git.TrustedCmdArgs) error {
+	return git.NewCommand("fsck").AddArguments(args...).Run(ctx, &git.RunOpts{Timeout: timeout, Dir: repoPath(repo)})
+}
diff --git a/modules/gitrepo/gitrepo.go b/modules/gitrepo/gitrepo.go
index 5da65e2452704..005e9a220d5cc 100644
--- a/modules/gitrepo/gitrepo.go
+++ b/modules/gitrepo/gitrepo.go
@@ -81,3 +81,7 @@ func RenameRepository(ctx context.Context, repo, newRepo Repository) error {
 	}
 	return nil
 }
+
+func InitRepository(ctx context.Context, repo Repository, objectFormatName string) error {
+	return git.InitRepository(ctx, repoPath(repo), true, objectFormatName)
+}
diff --git a/services/migrations/gitea_uploader_test.go b/services/migrations/gitea_uploader_test.go
index 1970c0550c427..7d096cc07ce38 100644
--- a/services/migrations/gitea_uploader_test.go
+++ b/services/migrations/gitea_uploader_test.go
@@ -236,6 +236,7 @@ func TestGiteaUploadUpdateGitForPullRequest(t *testing.T) {
 	//
 	fromRepo := unittest.AssertExistsAndLoadBean(t, &repo_model.Repository{ID: 1})
 	baseRef := "master"
+	// this is very different from the real situation. It should be a bare repository for all the Gitea managed repositories
 	assert.NoError(t, git.InitRepository(git.DefaultContext, fromRepo.RepoPath(), false, fromRepo.ObjectFormatName))
 	err := git.NewCommand("symbolic-ref").AddDynamicArguments("HEAD", git.BranchPrefix+baseRef).Run(git.DefaultContext, &git.RunOpts{Dir: fromRepo.RepoPath()})
 	assert.NoError(t, err)
diff --git a/services/repository/check.go b/services/repository/check.go
index b475fbc487d29..afcabc0b874be 100644
--- a/services/repository/check.go
+++ b/services/repository/check.go
@@ -14,6 +14,7 @@ import (
 	system_model "code.gitea.io/gitea/models/system"
 	user_model "code.gitea.io/gitea/models/user"
 	"code.gitea.io/gitea/modules/git"
+	"code.gitea.io/gitea/modules/gitrepo"
 	"code.gitea.io/gitea/modules/log"
 	repo_module "code.gitea.io/gitea/modules/repository"
 	"code.gitea.io/gitea/modules/util"
@@ -47,10 +48,9 @@ func GitFsckRepos(ctx context.Context, timeout time.Duration, args git.TrustedCm
 
 // GitFsckRepo calls 'git fsck' to check an individual repository's health.
 func GitFsckRepo(ctx context.Context, repo *repo_model.Repository, timeout time.Duration, args git.TrustedCmdArgs) error {
-	log.Trace("Running health check on repository %-v", repo)
-	repoPath := repo.RepoPath()
-	if err := git.Fsck(ctx, repoPath, timeout, args); err != nil {
-		log.Warn("Failed to health check repository (%-v): %v", repo, err)
+	log.Trace("Running health check on repository %-v", repo.FullName())
+	if err := gitrepo.Fsck(ctx, repo, timeout, args); err != nil {
+		log.Warn("Failed to health check repository (%-v): %v", repo.FullName(), err)
 		if err = system_model.CreateRepositoryNotice("Failed to health check repository (%s): %v", repo.FullName(), err); err != nil {
 			log.Error("CreateRepositoryNotice: %v", err)
 		}
@@ -190,7 +190,7 @@ func ReinitMissingRepositories(ctx context.Context) error {
 		default:
 		}
 		log.Trace("Initializing %d/%d...", repo.OwnerID, repo.ID)
-		if err := git.InitRepository(ctx, repo.RepoPath(), true, repo.ObjectFormatName); err != nil {
+		if err := gitrepo.InitRepository(ctx, repo, repo.ObjectFormatName); err != nil {
 			log.Error("Unable (re)initialize repository %d at %s. Error: %v", repo.ID, repo.RepoPath(), err)
 			if err2 := system_model.CreateRepositoryNotice("InitRepository [%d]: %v", repo.ID, err); err2 != nil {
 				log.Error("CreateRepositoryNotice: %v", err2)
diff --git a/services/repository/create.go b/services/repository/create.go
index c4a9dbb1b6968..3599e2257861a 100644
--- a/services/repository/create.go
+++ b/services/repository/create.go
@@ -141,7 +141,7 @@ func prepareRepoCommit(ctx context.Context, repo *repo_model.Repository, tmpDir
 // InitRepository initializes README and .gitignore if needed.
 func initRepository(ctx context.Context, u *user_model.User, repo *repo_model.Repository, opts CreateRepoOptions) (err error) {
 	// Init git bare new repository.
-	if err = git.InitRepository(ctx, repo.RepoPath(), true, repo.ObjectFormatName); err != nil {
+	if err = gitrepo.InitRepository(ctx, repo, repo.ObjectFormatName); err != nil {
 		return fmt.Errorf("git.InitRepository: %w", err)
 	} else if err = gitrepo.CreateDelegateHooks(ctx, repo); err != nil {
 		return fmt.Errorf("createDelegateHooks: %w", err)
diff --git a/services/repository/template.go b/services/repository/template.go
index 95f585cead450..eaa153a6d6e8b 100644
--- a/services/repository/template.go
+++ b/services/repository/template.go
@@ -13,7 +13,6 @@ import (
 	issues_model "code.gitea.io/gitea/models/issues"
 	repo_model "code.gitea.io/gitea/models/repo"
 	user_model "code.gitea.io/gitea/models/user"
-	"code.gitea.io/gitea/modules/git"
 	"code.gitea.io/gitea/modules/gitrepo"
 	"code.gitea.io/gitea/modules/log"
 	notify_service "code.gitea.io/gitea/services/notify"
@@ -122,7 +121,7 @@ func GenerateRepository(ctx context.Context, doer, owner *user_model.User, templ
 	}
 
 	// 3 -Init git bare new repository.
-	if err = git.InitRepository(ctx, generateRepo.RepoPath(), true, generateRepo.ObjectFormatName); err != nil {
+	if err = gitrepo.InitRepository(ctx, generateRepo, generateRepo.ObjectFormatName); err != nil {
 		return nil, fmt.Errorf("git.InitRepository: %w", err)
 	} else if err = gitrepo.CreateDelegateHooks(ctx, generateRepo); err != nil {
 		return nil, fmt.Errorf("createDelegateHooks: %w", err)
diff --git a/services/wiki/wiki.go b/services/wiki/wiki.go
index 45a08dc5d686d..aaaed65a65a95 100644
--- a/services/wiki/wiki.go
+++ b/services/wiki/wiki.go
@@ -39,7 +39,8 @@ func InitWiki(ctx context.Context, repo *repo_model.Repository) error {
 		return nil
 	}
 
-	if err := git.InitRepository(ctx, repo.WikiPath(), true, repo.ObjectFormatName); err != nil {
+	// wiki's object format should be the same as repository's
+	if err := gitrepo.InitRepository(ctx, repo.WikiStorageRepo(), repo.ObjectFormatName); err != nil {
 		return fmt.Errorf("InitRepository: %w", err)
 	} else if err = gitrepo.CreateDelegateHooks(ctx, repo.WikiStorageRepo()); err != nil {
 		return fmt.Errorf("createDelegateHooks: %w", err)