I got a few more!

Tomb Raider and Tomb Raider: The Last Revelation have pyramid levels.

Might and Magic 3: Isles of Terra has small pyramids scattered around the different islands.

Might and Magic 5: Darkside of Xeen - There's a pyramid in the Desert of Doom.

Might and Magic 6: The Mandate of Heaven - There's a pyramid in the Dragonsand Desert.

Shaq Fu - Sett Ra's level is inside some kind of pyramid. Sett Ra is a mummy.

Snake Rattle N Roll - One of the levels is shaped sort of like a pyramid and it has flying carpets, so I would assume that's what it's supposed to be.

"Take away my soul, I know I will feel no different
Just another one controlled in a universal instrument
All this matter's too much to absorb
I'm just one person on this God-forsaken orb!
What do you want from me?"