Despite all of the advice you see on SDN about not taking your prereqs at a CC, this is completely typical transfer behavior.
I assume that the reason they want you to finish the prereqs is because they are all of the prereqs for your major, which is likely Bio, Chem, Biochem, Physics, or Engineering.
If this is the case.....this is how it is going to be everywhere. You CANNOT get into one of those majors at most schools (including every UC) without completing the prereqs first. The reason is that the upper division coursework all rests on this foundation, and if you don't complete it before you get there, they 1- don't know if you can hack upper division, and 2 - know it will take you WAY longer to graduate, which is sucking up resources from them.
The major point is that taking prereqs at a CC does NOT preclude you from getting into medical school. It just doesn't. Especially when you are planning on taking upper division bio, chem, or physics classes that will back up the fact that you can hack the coursework.
It will not even keep you from medical school if you got your undergraduate degree in Underwater Basketweaving (as I did) and then go back and do your prereqs at CC for financial reasons. Seriously. You can get into medical school.
Now, will you have your pick of any med school in the country? No. But guess what....you wouldn't have anyway. This process is long and arduous, and there are a heck of a lot of boxes to check before you even get to put an application together.
Are there schools that categorically reject you if you have CC prereqs? Maybe. But I don't know what they are, because no school will admit to this (Though U Michigan has come close through some of the spoutings of its Dean of Admissions).
But you know what dude? There are schools that will reject you if you don't have enough research, or the right kind of research. And schools that will reject you if you write your personal statement a certain way. And schools that will reject you if you turn your secondary in too late. And schools that will reject you if you had a migraine during your interview and just didn't do so well.
This is not going to break your application. Worry about doing well after you transfer, and showing that you can still handle a 3.9 in upper division courses. Rock the MCAT, and (almost) no one will care that you took Intro to Bio at a CC.
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