If done properly, everything should be just fine.
A few important things come to mind...
Check all fluids. Engine oil, drive lube. Make sure block drain plugs are installed.
There are plenty of discussions here in these forums on recomissioning your I/O in the spring.
It sounds like you are new at this. While your boat is stored for the winter, it's a great time to dream about next summer and look through these forums for tips. There's also the stickies for more detailed maintenance and repairs.
If you have specific questions, just ask. The members here are very knowledgeable and happy to lend a hand.