General Physics (freshman): Alonso & Finn
Undergrad QM: Bransden & Joachin or Zettili
Undergrad Mathematical Methods: Boas, Wylie, Bender & Orszag
Undergrad GR: Schutz
Undergrad DE: Shepley L. Ross, Coddington, Tenenbaum & Pollard, Strogatz (nonlinear DEs)
Undergrad PDE: Habermann
Undergrad Numerical Analysis: Dahlquist, Epperson
Intro to MATLAB: Hahn
Can't think of any good undergrad EM or Classical Mechanics (Lagrangian + Hamiltonian) books. For the former we used Griffiths, and personally I don't like that book or his QM one, and for the latter we used Marion and Thornton, which is OK, but not good or great. Compared to the quality of the books above, I don't think Griffiths or Marion & Thornton (M&T) are in the same league. M&T is the only book, I believe, covering classical mechanics at an undergrad level, so you're pretty much stuck with it. While I'm telling you the books I don't like, I should add the Chabay & Sherwood book for general physics.
Can we recommend pure maths books as wel?