I've got mixed feelings about this one. Until recently I was under the impression that the two files you've found were deleted after the infection process completed, but now I'm not so sure that information was correct and I haven't been able to get confirmation one way or the other. For those that had Little Snitch in originally, most of us ended up deciding it was sufficient to delete those and move on. Since most of the testing you had already done when I got here came up empty, I'm at a loss to know the real state of your computer. So here's the advice I've been giving to everybody suspected of being infected by the last couple of variants, Courtesy of Linc Davis:
You installed a variant of what’s commonly called the “Flashback” malware, although the name is obsolete.
If you’re certain you know when that happened, and you back up with Time Machine or something similar, you can save yourself a lot of time by restoring your whole system from the most recent snapshot taken before it was infected. Then take Steps 7, 8, and 10 below.
How can you tell when the infection took place? All you can be sure of is that you were infected some time before the problems started. You may have visited a blog that prompted you to install some kind of software, or a “certificate.” If you remember doing that recently, mention it in a reply, but don’t post a link.
If you don’t know when you were infected, there's no easy, reliable way to remove the malware, because it's constantly changing. I suggest you take the following steps immediately:
1. Back up all data to at least two different devices, if you haven't already done so.
2. Boot from your recovery partition (if running Mac OS X 10.7 or later) or your installation disc (if running an earlier version of the Mac OS), launch Disk Utility, and erase the startup volume. This action will destroy all data on the volume, so you must be sure of your backups.
3. Install the Mac OS.
4. Reboot and go through the initial setup process to create an account with the same name as your old one. Don’t import anything from your backups at this stage.
5. If running Mac OS X 10.6.x or earlier, run Software Update. You may have to run it more than once to fully update your system.
6. Restore the contents of the top-level subfolders of your home folder except “Library” from the most recent backup. The Library folder may contain components of the malware. It’s best not to restore anything from there. If you must do so, restore only files, not folders, and only if (a) they’re visible in the Finder, and (b) you know what they are, and (c) they haven’t been altered. Don’t restore anything in the home subfolder Library/LaunchAgents, if it exists, or any hidden files or folders, no matter where they are.
7. If you’re running Mac OS X 10.5.8 or earlier, launch Safari and select Safari ▹ Preferences… ▹ Security from the menu bar. Uncheck the box labeled Enable Java. Because of known bugs, Java in those OS versions is unsafe to use on the Internet. (Note: I’m not referring to JavaScript, which is unrelated to Java, despite the similar names.) If you’re running Mac OS 10.6.8 or later, you should still disable the Java web plugin unless you really need it. Few websites have legitimate Java content nowadays. If you encounter one that does, enable Java temporarily.
8. Change every Internet password you have, starting with banking passwords. Check all financial accounts for unauthorized transactions. Take this step only after you’ve secured your system in the preceding steps, not before.
9. Reinstall your third-party software from fresh downloads or original media, not from backups which may be contaminated.
10. If you use any third-party web browsers, disable Java in their preferences. As with step 7, this step is mandatory if you’re running any version of Mac OS X older than 10.6. Otherwise it’s optional, but recommended.
I suspect others will be here shortly to offer alternatives if you find this too difficult. I know that etresoft modified his script https://discussions.apple.com/docs/DOC-3271 last night to eliminate the two files you found.