I am unable to see linked folder in MCUXpresso IDE v11.4.1. It was working fine in v11.2.1. Please find attached screenshot for reference.
v11.2.1 (FreeRTOS, DAL folder)
v11.4.1(FreeRTOS ,DAL are not visible)
linked folders work fine on my side with 11.4.1 (Windows).
I cannot think about a reason why not. Is there anything special with your setup. Or can you share an example project?