While I personally avoid Windows for production webapp servers (at least ones accessible from the open internet), I have clients who are braver than I am.
I'd recommend using the 64-bit version of Tomcat. You do not have to build 64-bit webapps. Every Java executable is 64-bit at the virtual level, so the important part is to be using the 64-bit JVM, on platforms where that's an option.
An IDE is no substitute for an Intelligent Developer.