Will this fit my manual transmission Protege?

No. This radiator is tuned for automatic transmission cooling. Manual Proteges require a different core with different cooling circuits. Verify your transmission type before ordering.

Do I need to drain the cooling system to install this?

Yes. You'll need to drain coolant, disconnect hoses at the radiator, remove mounting bolts, and reverse the process on install. Have a drain pan ready and let the engine cool completely first.

Does this come with new hoses or clamps?

Radiator assembly only. Reuse your existing hoses if they're in good condition, or source new ones separately. Many builders refresh hoses while they're in anyway.