diff --git a/core/cli/doctor.el b/core/cli/doctor.el
index 773c14996b3..cd88d2445a5 100644
--- a/core/cli/doctor.el
+++ b/core/cli/doctor.el
@@ -139,8 +139,12 @@ in."
         (require 'projectile)
         (when (projectile-project-root "~")
           (warn! "Your $HOME is recognized as a project root")
-          (explain! "Doom will disable bottom-up root search, which may reduce the accuracy of project\n"
-                    "detection."))
+          (explain! "Emacs will assume $HOME is the root of any project living under $HOME. If this isn't\n"
+                    "desired, you will need to remove \".git\" from `projectile-project-root-files-bottom-up'\n"
+                    "(a variable), e.g.\n\n"
+                    "  (after! projectile\n"
+                    "    (setq projectile-project-root-files-bottom-up\n"
+                    "          (remove \".git\" projectile-project-root-files-bottom-up)))"))
 
         ;; There should only be one
         (when (and (file-equal-p doom-private-dir "~/.config/doom")
diff --git a/core/core-projects.el b/core/core-projects.el
index 34d4a7d127e..898557bd255 100644
--- a/core/core-projects.el
+++ b/core/core-projects.el
@@ -138,19 +138,6 @@ c) are not valid projectile projects."
                  and do (remhash proot projectile-project-type-cache))
         (projectile-serialize-cache))))
 
-  ;; It breaks projectile's project root resolution if HOME is a project (e.g.
-  ;; it's a git repo). In that case, we disable bottom-up root searching to
-  ;; prevent issues. This makes project resolution a little slower and less
-  ;; accurate in some cases.
-  (let ((default-directory "~"))
-    (when (cl-find-if #'projectile-file-exists-p
-                      projectile-project-root-files-bottom-up)
-      (doom-log "HOME appears to be a project. Disabling bottom-up root search.")
-      (setq projectile-project-root-files
-            (append projectile-project-root-files-bottom-up
-                    projectile-project-root-files)
-            projectile-project-root-files-bottom-up nil)))
-
   ;; Some MSYS utilities auto expanded the `/' path separator, so we need to prevent it.
   (when IS-WINDOWS
     (setenv "MSYS_NO_PATHCONV" "1") ; Fix path in Git Bash