Try to do one thing at a time, replace the carb rubbers and run it. The carb boots can be replaced easily with just the choke cable and the TPS plug removed, there is no real need to disconnect anything else...initially
The carbs may need the emulsion tubes and the main metering needle replaced, but first run the bike and see what the change has made.
You will find if your bike (1995) is still fitted with the original style carb rubbers, the new carb rubbers are different and the original clamps are difficult to access and the top clamp is a pain to tighten.
The original rubbers are in some cases 25plus years old and crack this will cause the high idle, slow to start and high rpm misfire.
Replace them with genuine Yamaha rubbers as the aftermarket rubbers are hit and miss with the quality, the original are $25 each from Yamaha. The aftermarket ones advertised on the Bay are similar price including postage..
The 1995 bikes are a little different in many aspects and have some parts that are no longer available in their original form, Yamaha has updated them to a subsequent evolution which can cause problems, these boots are one such issue.
Original boots V the new evolution, note the 3LD, 3LD01.
Original boots with the clamps on the top side facing slightly towards the back of the bike and are easy to remove etc (left side is reversed).
The replacement boots with one clamp easily accessed on the bottom with the other top clamp now facing up is fairly hard to get to as the frame gets in the road!
The new nickel plated (90450-57016), the old passivated black clamp (90450-57034).
The only real visible difference is the screw, which is now an Allen Key style, so the use of a ball end key will make it easier to fit.