Gurus in the House, I salute all. Please, I need your guidance

I use a 2001 Honda Civic with Automatic Transmission. I changed my shaft on Thursday, and after some minutes of test-driving, I noticed that the car started having gear shift problem. It will stay on one and delay before it change gear and sometimes, it wouldn't change at all, instead the RMP will just go up. Check Engine Light show on the Dashboard

I visited a gear mechanic, he said it was because the shaft was removed while the engine was still hot. When he scanned, he saw two Error code; one was P0730 OBD-II : Incorrect Gear Ratio, I can't remember the other. He cleared the code, did some adjustment; the check engine light disappear, and the gear shifted though with some hesitation sometimes which promised will disappear overtime.


This Is My Problem
One of the shaft got stiff and pulled, so I have to remove it and replace it yesterday, and the problem of improper gear shifting is back again. The gear would not shift to a higher gear. Note: I ensured the car was not driven at all before removal and replacement.

I also noticed that my transmission shifter doesn't shift the gear correctly, when I try to put it in any of the gear, first, it doesn't align correctly, and I will have to shift a little more forward before it will eventually engage.


Gurus in the House, I need help, please guide me. This is the only place I can run to and be sure to gain knowledge and find answers