Problems trans files from Mac Mini to a new iMac

I'm trying to help a friend of mine, who is a senior citizen. He's had a Mac Mini for a couple of years now but recently purchased the 27" iMac due to being technically blind. The iMac provides a way to use speech and other accessibility features that will help him. He had another senior friend of his come over and he went through the steps to setup the New iMac but he skipped the step for transferring files. When I first examined the Mac Mini, I noticed that a program called "MacKeeper" keeps popping up, stating that there are 314 problems found. I didn't know much about this program until I looked it up online and found out that it carries Malware. I have no idea what else he may have done with the Mini because I'm trying to put the pieces together for this puzzle.
Here are my questions:
1. I researched MacKeeper and it states that "if MacKeeper's encryption feature was used, be sure to unencrypt before you uninstall MacKeeper. Is there a way to tell if anything was encrypted? The info on MacKeeper said that if you don't unencrypt those files first, you will not be able to access them later. I want to get MacKeeper uninstalled and then make sure that his Mini Mac is clean before I begin transferring files. I know that Mac has security features built in but I really don't want to take a risk of transferring Malware, Trojans, etc.. over to the new iMac. What should I use to clean the Mini Mac?
2. When I tried connecting the two Macs together via Ethernet, the iMac could not find the Mini Mac. Do I need to restart the Mini Mac by holding down the "T" key or is that only for Firewire? I can't use a Firewire cable because the iMac doesn't have a Firewire port. Is there something else that I need to do to make the Ethernet connection work?
3. When Migration Assistant runs, will it pull over any new Apps that were added to the Mini Mac? He has an 1Password App that he already has setup and needs.
4. Finally, if the above items are not recommended, would it be better to restore the iMac back to factory and start over, so that I can use the transfer files option during the setup?
I'm sorry that I've asked so much but I really don't know where to begin with this mess. Any help would be much appreciated.
Thanks,
Palarin

Hi,
See this Excellent Link on Using Setup Assistant to Transfer your Information from your Old Mini to your New iMac...
http://web.me.com/pondini/AppleTips/Setup.html
With Regards to any Pro Apps you may have, my Previous Statement still stands...
Many have tried in the past to Transfer Pro Apps but few... if any... have succeeded...
So do a Fresh Instal from the Original Discs and you will save time and heartache...
Hope this helps,
Cheers,

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