It may have skipped all stages, Ive had that if its really messed up.
Try only ticking bottom box and it will run inside Windows (does 5stages) but only in read mode same as soing CHKDSK in the RUB box (only does 3).
I am only trying to help I dont know for sure whats up, I had one file system so messed up it would only CHKDSK by using as a slave drive to another HDD with Windows on it, I CHKDSK'd it from the other drive.