The Valeyard says:
Whether the Doctor has proved himself innocent of meddling is no longer the cardinal issue before this court. He has proved himself potentially guilty of a far greater crime.
Article seven permits no exceptions.The Doctor is contemplating the destruction of a complete species. Should he perform such an action the charge must now be genocide.
Warrant Officer Ellen Ripley (currently resident of Gateway Station) says :
The Doctor and his friends set down on Skaro on High Council orders to get these things.
I vote that he should take off and nuke the entire site from orbit. It's the only way to be sure.