I'm sorry that you ran into trouble with SuRun.
I just checked the online version of SuRun 1.2.0.9. (I really should add MD5 checksums to the downloads!) It has no Trojan inside. InstallSuRun.exe unpacks SuRun.exe and SuRunExt.dll in 32Bit Windows or SuRun.exe, SuRunExt.dll, SuRun32.bin and SuRunExt32.dll in x64 Windows to %WINDIR%. AVG reports that behavior as Trojan.
What probably caused to crash your system is, that SuRun's
IAT-Hook routines did conflict with AVG.
If you intend to use SuRun and AVG you first have to deactivate AVG, then install SuRun and then disable SuRun's IAT-Hook. You need to start "SuRun Settings", activate "Show SuRun settings for experienced users", go to the tab "Execution hooks" and uncheck "Set a Hook into all processes that directly execute applications".
After that you should be able to use AVG and SuRun together, but SuRun with limited functionality.