diff --git a/.github/workflows/migrate-s3.yaml b/.github/workflows/migrate-s3.yaml
index 6e00502..0dc326f 100644
--- a/.github/workflows/migrate-s3.yaml
+++ b/.github/workflows/migrate-s3.yaml
@@ -69,8 +69,10 @@ jobs:
           # remove all spaces and put one comma between prefixes
           cleaned_prefixes=$(echo $prefixes | tr -s '[:space:]' ',' | sed 's/[,/]*$//')
 
-          # remove `contentstore.deleted/` from cleaned_prefixes
-          cleaned_prefixes=$(echo $cleaned_prefixes | sed 's/contentstore.deleted,//')
+          # remove `contentstore.deleted/` from cleaned_prefixes with comma if in list
+          cleaned_prefixes=$(echo $cleaned_prefixes | sed 's/contentstore.deleted,//')\
+          # remove `contentstore.deleted` from cleaned_prefixes if at the end of the list
+          cleaned_prefixes=$(echo $cleaned_prefixes | sed 's/contentstore.deleted//')
 
           DIRS=""
           IFS=','