I apologize for the late reply -- shame on me and the rest of us for not responding to this sooner.
While viruses so in fact infect and attach to innocent files, that's not what's happening in this case. Over time as you get more expeienced in such thigns you'll develop a better feeling for when something is likely to be a false alarm. The fact that these were the only programs on your pc that were alerting is a good sign that it's a false alarm.
A *great* thing to do is upload the file to an online virus checker like
http://www.virustotal.com/ as was mentioned above. If only a couple indicate it, it's probably a false alarm. Never ignore such false alarms but always treat them with a grain of salt.
What i want to encourage skrommel and other ahk coders to do is
1) encourage the ahk developers to be more aggressive in making antivirus companies stop these false alarms
2) set up an automated procedure for recompiling their ahk exes with new versions of ahk when it comes out to at least make it easier to update.