How would cause a short by hitting the fuel tanks? Then you have already said, the fuel tank was empty and could not explode.
Read the NTSB report, it makes a lot of sense and they don't grasp at straws.
I would not ignore the testimony of hundreds of eyewitnesses who saw TWA 800 shot down by either one or two missiles. That's the strongest evidence in this case and yet it was essentially ignored by the FBI. Don't forget too that initial reports by the NY Times quoted the FBI saying that explosives residues were found on the crash debris. I have my own theory of what actually happened and it's not a fuel tank explosion.
From the witnesses to the corner not able to do the autopsys. From the picture that was taken illegally that shown hyper velocity projectiles holes to the confiscated debris that disappeared and the red powder all over the seats (which was NOT glue according to Donaldson.) Last but not least the comment Clinton made in private of the incident.