There are a mixture of records, but Florida's haven't survived as well as Alabama's. Basically, there is an Executive Order issued by Governor Milton in July 1864 calling for the formation of the home guard. This was followed by a second order outlining how the companies should be formed and what they should do. Milton then followed this up with several letters reporting the number of companies raised, overall total number of men mustered, etc.
He reported that 38 companies total were formed in Florida, mustering around 2,700 men. I have not been able to find requisitions, receipts, etc., although an order issued by Gen. Samuel Jones after the Battle of Natural Bridge (March 6, 1865) instructs the home guards to take their state-issued weapons home with them so they could turn out quickly in the future.
Most of the units in West Florida are pretty well documented from contemporary newspaper and military accounts of the Asboth Raid and Battle of Marianna, as well as Union P.O.W. records.
Using these, with state pension application files, I've been able to put together rolls of most of the companies, although I'm sure they are not complete.