As for eval slowing down your system, don't worry — unless you're eval'ing those config snippets millions of times... (on my system, the given piece of code wrapped in a sub can be eval'ed and executed roughly 50000 times per second).
The security worries, OTOH, are justified, presuming you can't trust your users, and the code isn't being run under their own user ID anyway (in which case I wouldn't worry too much...) You might want to look into Safe to restrict the opcodes that can be used.
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