I try to get the best of both worlds. Fedora (Linux) works great for freeware apps as long as you are willing to devote some time in R&D/maintenance. Windows (2000 Server or XP Pro) may work as well too and has many plug&play apps (espeically with SQL Server as RDBMS) but can be pricey. Keeping your apps Java based maybe one option so you can switch to any platform as necessary. Like LAMP you can have a stable implementation with Tomcat/MySQL/JSP that will work in all platforms.
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