yes, they would be found because there are some entries in the windows registry.
The only solution is to upgrade your software.
I'm using CloneCd 5.1 (for audio-cd's), Alcohol 120 18.104.22.1685 (for making imgages of software) and Daemon Tools 3.47 (for mounting them).
No problems so far and all of them do their job great.
One last hint: Try to uninstall Virtual Drive because that's emulation software too...
And always use the latest version of daemon-tools (if you have installed one)