If you use Listables you can look at the package names of the apps.
it'll probably be something like "com.qik.android.client"
As long as the pre-installed version has the same package name, there should be no conflict at all. And if I had to be I'd say 99% chance it's the same name and you're fine to just update from the market.
The way you can tell the package name for an app in the market would be to look at the URL
So for one of my apps BlueMuze it's this:
...market.android.com/details?id=com.alostpacket.bluemuze
Bolded green part is the package name. If those match, you're good to go.