Sometimes, when things get aggravating, one must walk away for awhile. Troubleshooting should be done with a method approach. It is a skill as much as art. Don't check one filter, check them all, period. The second the thing wouldn't start, pull spark arrestor from carb, look at accelerator pump jets and manually pump throttle arm a couple of times, watching for a squirt of fuel. No squirt equals no fuel, and a place to start. If carb is full of fuel, move on to ignition. Remember that you need three things to run, 1. fuel. 2. compression. 3. ignition (at the right place and time). That's it. Since this thing runs good when it runs, I think you are looking at fuel or ignition. And now, a short story. Picked up a jet boat from under a pine tree. Spent some enjoyable time cleaning it up, getting it running, going through it, etc. Take her out for sea trials and she's hot to trot. Do some final tuning and she's turn key. Mrs. Jim and I spend the morning cruising here and there and even get in some skiing with it before it slowly dies like it was throttled slowly back to idle. No start but fuel in the carbs. We paddle back toward the dock before eventually getting a tow from a fellow boater. Home we go. Of course, when we get home and get the hose hooked up, the vessel starts right up before I can even start on the ignition system. Kind of hard to fix something that works. We go back to the lake for the evening. Lo and behold, after a couple of hours, same thing. This trip though, I hooked up a battery of portable test equipment. We have fuel but now no spark. I take a jumper wire from the battery and run power straight to the ignition. Nothing. I raise my eyebrows and look at Mrs. Jim. She shoots me a sultry glance and asks if we are going to spend the night out there. Lucky I brought some blankets. I continue working on the boat. After thinking about it for about the same time it takes to enjoy a cool beverage, I disconnect the ground wire from the ignition system that is used to kill the ignition. BAM, she lights right off. We head for home and the shop. After looking for awhile and bypassing components, I found that the safety lanyard switch had enough crud in it that it shorted out after awhile and shut down the boat as if you had turned off the key. Once that it had cooled down, it would work again for awhile. It was like a $20 part. Disassembly and observation under magnification showed that electric current was tracking across the corrosion on the terminals inside the switch. Salt water and it's ingredients are conductive.