FAT32 does not have a limit of 32GB per se. It's just that the formatting tool in Windows cannot create a FAT32 volume larger than 32GB, so it's the formatting tool in Windows that imposes the 32GB limit, not FAT32 itself. However, many third-party formatting tools have no such limitation, and Windows is quite able to read and write to a FAT32 volume which is greater than 32GB, it just can't create one with it's own formatting tool.
If your operating system is running on an NTFS volume, I recommend you choose NTFS for all storage devices too.