904 transmission bolt up to 318

I tore up my flex plate so I needed to drop the transmission to put a new plate in. As I go to align the transmission back up, the bell housing is about half an inch to an inch off from the engine bolt holes. No matter what I do it will not move in further. I think the torque converter is not 100% in. The torque converter bolt pads are in line with the bellhousing. I know that is not right. Any tricks to get the torque converter all the way in? I cannot push it in any further even when rotating it. How can I tell that it is 100% in? Any help is much appreciated. Many hours spend under the car in frustration.

Mike