Nautilus sees and unlocks an encrypted external HDD amazingly well.I'll try encryption again on the internal HDD and see how it goes. If it works, I most likely did something wrong during the install.
Here's a possible reason why Nautilus doesn't see the internal HDD: The path I told it to be mounted on wasn't on /media but on /home. https://askubuntu.com/questions/207288/nautilus-does-not-display-drives-properly
