Interesting serious of events you have experienced.
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I couldn't use my canner as these jars fell thru the wire rack and would have sat on the bottom of the pan.
You could have still used your canner, but just tossed that wire thing, and used a bunch of spring lids tied together to create a platform, or possibly a round cookie wire rack. I actually recommend that you get a pressure canner platform that fits your water bath canner.

Actually one should get a couple of them so you can use one as a separator for stacking jars.
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I used a flat silicone oven mitt thing. Partway thru the processing the silicone tipped that one jar over and floated to the top.
Well, at least you learned now not to use silicone mitts as a ventilator, which is what the racks are for....to allow the flow of water (and heat) inbetween the jars.
If the jar tipped over, it probably did not get processed correctly, especially the purging of the air to seal the lid, so I would put that one in the refrigerator or at least watch it closely for problems. Jams don't have the poison problem that other foods have.
I'm curious though how you are seeing and trying to correct all these little problems while the canning process is going on. In my canner the lid is on (not to be removed) and the rolling boil prevents me from seeing letting alone doing anything with the jars. If you are doing this then you have NOT successfully pasteurized your jars and you have created a safety issue.
Any reduction of temperature during the canning process requires that the heat be brought back up to the required conditions and the timing restarted from the beginning.
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Also, I processed these little jars for 8 minutes total. I am 50 ft above sea level (yes, just 50) and I couldn't find a recommended time for such small jars. Do you all think that is a sufficient time?
Most such recipes today have processing of 10 minutes, which also eliminates the need for pre-sterilizing the jars. You need to be over 1,000 feet above sea level before you need to consider adjusting the processing time to compensate.