Problems After Installing New Chip

[secrestwrecker]

Ok, I'm going to start from the beginning on this one. 2000 7.3 ex cab short bed 4x4, 204,000 miles. The truck has been awesome, never gives any major problems. I have had a DP Tuner on it for several years. I upgraded the HPOP to a SRP1.1, and began to have a hard start issue. The truck would sometimes take 2 or 3 times to crank, and sometimes it would crank then shut off. It also stuttered while going down the road twice, and shut off once. I pulled the ICP plug and found oil in it, so I cleaned that and it seemed to help. I also bought a new IPR which I havent had time to put in yet. So with that problem apparently solved (I thought) I decided to switch to Bean's tuning, so I ordered a new 6 position chip from them. I got the chip in the mail, and installed it in the truck per Beans' instructions. The truck ran horrible, it seemed like none of the tunes matched up to what I had ordered. I was thinking that maybe they sent me someone else's chip on accident, because I didn't get a card confirming what tunes were on this chip. I took the chip back out and decided to run the truck stock until I got the situation fixed. Beans got back in touch with me today, and emailed me all of the right tunes I had ordered. I went to burn the tunes on to the chip, and when I tried to erase it I got an "error- module not formatted" message. I gave up and decided to go home, and on the way home (still not running the chip) it seemed like I lost acceleration for a minute, and then the truck had no power and the SES light would flash on and off in a split second when I accelerated. I pulled the codes and got P1249- Wastegate Fail Steady State Test, P0733- Gear Three Ratio Error, and P1209- Injection Control System Pressure Peak Fault. Is it possible this bad chip cooked my PCM? I don't understand why these problems would start two days after the chip was pulled out of the truck?