Somehow I thought you were renting a car, Travis. No matter, as this offers you good flexibility (watch your driving from Polebridge to Bowman, big rocks, etc.).
Another lodging idea--the Izaac Walton Hotel in Exxex, half way between West Glacier and East Glacier on Hwy. 2. Google them--you can splurge and sleep in a caboose in luxury! And eat well too.
If you'd rather dirtbag it, you could always snag a $50 cabin at Swiftcurrent Lodge (best to reserve it ahead of time, to be sure they have a room for you--it's high season), and then drive the short way back down to the Many Glacier Hotel and bask in its glory for free. The view from the hotel's deck is my favorite on the planet--3 major valleys converge there, Grinnell, Swiftcurrent, and the Ptarmigan Wall complex. The view is even better at the parking area up above the hotel just east. It's cheaper as well, just bring your own beer and sit on the rocks for the sunset.
Whatever you choose to do, please post your plans. If I'm not in Canada by that time, I'd love to share a sunset beer with you and hear your stories of Boulder Pass.