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The best way to do this is to rent a boat and paddle upstream to Allston from Kendall Square. Vice-versa is great too, the river has no current to fight against. It'll take less than 2 hours and is amazing.
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Likely the most striking building on MIT's campus, built in 2004 in a very modern architectural form. Contains a small branch of the MIT Museum (see below).
CambridgeSide
Sightseeing, sunset, and architectural tours on the Charles River and Boston Harbor.
One Kendall Square
This great theater has all the newest Hollywood blockbusters, plus all the arty flicks you never knew you wanted to see. Big garage next door, so parking here isn't as big an issue.
A monumental dome with an oculus at its center, similar to the Pantheon in Rome. Located in MIT Building 10 (most MIT buildings are referred to by numbers rather than names, as befits the university's technical orientation).
The bridge connecting Cambridge to Boston across the Charles river. Located at the edge of MIT, not Harvard University. It's well known in the nerdy folklore of MIT: the distance across the bridge is marked in "smoots" (1 smoot = ) after Oliver Smoot, an MIT student who allowed himself to be laid end-to-end to measure the distance across the bridge, as part of a fraternity prank.