Flag parsing not functioning correctly

[hiimcody1]

This likely leads back to my lazy implementation of BitArray objects and a lack of proper understanding for how some flags are stored.

As it is right now, the flag parser and option system just needs to be overhauled. If I can get things written well enough to parse the flags, then I can at least read flagsets from the standalone program.

Exporting has been the main challenge so far. If this approach is used, the binary will need to be recompiled to use actual CLI flags per-option instead of parsing a flag string. Ellendar's fork already has a more robust option system. It may be possible to backport that system to the current logic, but that's a whole can of works in itself.