I am starting to plan a 2 week vacation and was wondering if this would be doable. Flying in to Zurich and out of Amsterdam - should I fly, take a train or bus in between? Also I'm flexible on most of it. Thanks

Zurich - 4-5 nights
Munich - 3 nights
Prague - 3 nights
Amsterdam -2

It is do-able, but I'm not sure what is driving your allocation of time, which seems odd to me. For example, 4 or 5 nights in Zurich seems high compared to most itineraries, and 2 nights in Amsterdam seems low -- not that either choice is wrong -- it could be perfect! its just that you haven't told us what YOUR interests are, making it very difficult (if not impossible) for us to comment.

If you haven't already done so, I recommend that you get some good guidebooks (or spend some time with a few in your local library), identify the things you most want to see in each location, check opening/closing times on the web, and mark them on a calendar. Then pencil in your transportation, add some time on either side (for getting to/from your lodging, checking in/out, packing/unpacking, getting oriented, etc.). Only then can you really see how things fit together.

Whatever you decide, and even if you skip one of these destination, I'm sure you'll have a great trip. Enjoy!

Zurich is a nice city but there is little there for tourists, so 4-5 days is excessive. I'd just fly into Munich and spend more time there and in Amsterdam.

I'd like to know why you picked THOSE cities before I tell you to do or not do anything.