Well as the title suggests I have found major time saves for the 100% run of this game, let's get to it.

Log #1: debug key "0" will make the night jump from 12 to 4am. What I have found is that you can do the objectives while still taking advantage of the debug key. Start the night off normally and make sure to stay on top of your tasks. (It helps a bunch if you know how long it takes to complete a single task, or just use a timer) On the pre-patch version of this game, Log 1 has very predictable/the same animatronic spawns at the same times. The strat is to play normally staying on top of your tasks an wait until Minater Foxy spawns, after you deal with him press the debug key and you should be at 5 am already. Not a lot of time save but it helps.

Fun with Freddy 2: This secret is just based on your hearing. However there is also something that greatly improves your chances of winning first try; Knowing the "kill" positions. The kill positions go as follow (at least the ones I know): Eyeless Freddy close to you, Freddy holding his own head and Freddy cocking his head to the side with one missing eye. These are what I call close positions and are the place where you NEED to shock the dude.

Log 4 and 5: In Logs 4 and 5 you also get debug keys that can greatly improve your speed throughout the run. You can figure out how to use those to your own advantage but the trick is... these debug keys also work in the extra nights (Containment Aggresion and Oxygen Life) so you can skip most of if not the entire night and save precious minutes.

Also use the F2 key to your advantage. Places where you could use them are: at the end of Fun with Freddy 2, The secret in Log 5 and the cutscene that leads onto Log 6. Hope all of this information helps.