I have two recent installations of BP. The first one is http://www.mancaveland.com and it is my main domain account with hostmonster. The second is http://www.hollisterwatch.com and it is an addon to the account. The first one has all of the options like keymaster, member etc. The second is missing these options all together. Is this a known issue?
Is this WordPress MultiSite setup or two separate WordPress installs for each of your domains?
Either way neither is a known issue and should work as you expect it would.
Try switching the problem site to the Twenty Theme and disable any other plugins to see if there is a conflict some, re-enable each plugin one by one and test your site again to see if you can find the conflicting plugin.