Alright I'm going to talk about InFamous and it's plot holes.
Plothole 1 - Kessler/Cole
Kessler went back i time to make his former self stronger, yet in his original timeline he developed his powers naturally. In his original timeline his future self would have traveled back in time to help him because time is an instantaneous phenomena. Ergo he would never have developed his powers naturally.
Plothole 2 - The Beast
Assuming that time travel would work how SuckerPunch has portrayed in InFamous, The Beast would have never originally existed. John was a conduit but he wasn't developed at all. The reason he becomes much more powerful is because of the second Ray Sphere Explosion in InFamous 1. However, Kessler created the Ray Sphere when he traveled back in time. Therefore Kessler created The Beast. In Kessler's original timeline his future self didn't travel back in time so The Beast wouldn't have existed.
On top of this Kessler seemed to know John was The Beast as he told him that he "Would do great things." That means that Kessler purposefully didn't destroy John right when he saw him.
Also John wouldn't have been killed by the Ray Sphere because he was a conduit. Take Nix for example.
Plothole 3 - The RFI
The RFI is designed to extract Ray Field Energy. Ray Field Energy is what makes Conduits more powerful. (John was exposed to it by the 2nd Ray Sphere Explosion in InFamous 1, creating The Beast.) By extracting Ray Field Energy from their bodies, Conduits allegedly die. This wouldn't happen. The Conduit Gene is not:
A.) Required for a human to live
B.) Destroyed when Ray Field Energy is extracted from it.
Think of the Conduit Gene as a light bulb with Ray Field Energy as its battery. When a light bulb loses power, does it explode? The answer is no. It simply goes out. The Conduit Gene is the same way, where without Ray Field Energy, the user has no powers.
SUMMARY OF PLOTHOLE 3: The Conduits would just be stripped of their powers, not killed. Then they would have to gather more Ray Field Energy to gain their powers back.
Plothole 4 - The Plague.
In InFamous 2, they go into extensive detail on "The Plague". They say that The Ray Field Energy channeled by Ray Sphere Usage cause the radiation poisoning. However, The Ray Sphere's purpose is to channel neuroelectric energy into one person. (The High Concentration creates Ray Field Energy) So therefore, all of the Ray Field Energy would have been channeled into the user of The Ray Sphere. (Cole or Bertrand and partly Nix and John)so that means that there wouldn't be any Radiation to poison people because it would be inside of the Conduits involved.
Plothole 5 - The Second Ray Sphere Explosion
Cole follows The First Sons out to a dock where they keep The Ray Sphere. He manages to set it off regardless of Karma choices. Everyone but Cole is killed. This shouldn't have happened. John was a conduit, and The First Sons is a group that only accepts Conduits into its Ranks, meaning all of The First Sons are Conduits. Therefore everyone involved in The Second Ray Sphere Explosion shouldn't have been effected whatsoever. Cole would have nobody to drain Neuroelectric Energy from, and John and The First Sons would have not been harmed by The Ray Sphere.
Long Story Short: INFAMOUS 2 SUX