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We won't mind a bit.
I can see the argument for both. The major benefit I'd see from doing it from within Drupal is that - unlike with Apache rewrite rules - you have access to some handy information such as whether the user is viewing a node. The problem that hyrcan ran into re: the login system would be circumvented. As would a whole host of others that would take individual rewrites to deal with, because the information you need just can't be parsed from the url. Plus htaccess modifications are pretty esoteric to a lot of people who are perfectly comfortable installing a contrib module.
BUT -- I think this may all be moot, anyways. Moshe is prompting you to submit your module code as a patch against core. http://drupal.org/node/88146
:)