I admit i'm not entirely sure how to check which of those is mounting it. The directory is in a NTFS partition mounted by /etc/fstab - the relevant line is here:
UUID=1646E9926F0B62FE /home/jen/Media ntfs rw,auto,users,exec,nls=utf8,umask=003,gid=46,uid=1000 0 0
Interestingly, I have been able to install games in my home folder (~/.config/itch/apps), which is in the same ext4 partition as the root directory. From this I have gotten a hacky solution to this issue where I install it into the home install folder and then just cut+paste the files over to the other partition, from which I can still run the game but obviously will cause complications down the line if anything ever needs updates.