Just a follow-up. I talked to the people in the math department at Baruch (Undergrad). The impression I received was that outside of the 5 Math of Finance concentration courses, a lot of the upper level Math courses are not offered frequently, e.g. PDE, Advanced Calculus, Numerical Analysis. It's predominantly an Arts school.
So if you want to enhance the upper-year math courses it may be difficult, and possibly only offered one semester per year, if that.
That being said, the program as offered is probably fine, the question really becomes: Is it enough to qualify for MFE? Yes, I'm sure it has already been done by good candidates.
Personally I chose CCNY Grove Engineering due to course availability and it's reputation for Math and Computer Science.