Thank you for the reply. I will upload some logs in a bit. I am on Windows 10 Pro 64bit. I found out that disabling Read Striping fixed the issue for rclone. I also tried the beta you mentioned and it behaved the same way with Read Striping On - rclone would not work correctly. When I disabled it again in the beta, rclone worked correctly.
Results of fltmc
C:\WINDOWS\system32>fltmc
Filter Name Num Instances Altitude Frame
------------------------------ ------------- ------------ -----
wcnfs 0 409900 0
WdF