Limitations of FAT32 File System- You cannot format a volume larger than 32 GB in size using the FAT32 file system in Windows 2000. The Windows 2000 FastFAT driver can mount and support volumes larger than 32 GB that use the FAT32 file system (subject to the other limits), but you cannot create one using the Format tool. This behavior is by design. If you need to create a volume larger than 32 GB, use the NTFS file system instead.
So you really have no choice but to use NTFS.