On the dents in the sides of the baits....you're either shooting the plastic too hot or the mold is ice cold...maybe both.
I do a lot of re-melts and each time I start with a cold chunk of plastic I cut it up into pieces about 1/2" square, but before I add them to the cut to heat I pour about an ounce of raw plastic into the cup, add some stabilizer if the color being melted is a light transparent color, then add the plastic piece and stir. I heat about a minute on high [1100 watt microwave] but keep a close eye on the melting progress, being sure to stir the cup when I see obvious melting taking place. Then I heat, stir in 15 second increminets until the plastic is shooting temp. For me that is generally about 340. If I get a lot of micro bubbles at the initial re-melt, I let the cup cool down to about 260 after stirring, re-heat it to 340 and shoot. The bubbles come out of the plastic when it sits idle, but hot and won't come back with the second heating.
There are some here that have problems with re-melts and others do seem to. Adding the raw plastic really is key as is the graduated heating after the first minute. IF you are doing light and/or transparent colors on the re-melts, I suggest using the stabilizer and don't be shy with it. In a 4 ounce re-melt I'll add about 20 drops to the 1 ounce of raw plastic. If you feel that the color has lightened after the initial re-melt add a drop of the color to another half ounce and stir it in good and add it to the cup on your second re-heat being sure to blend it in well when up to temperature.
Bubbles in the head end of the bait can be from many causes but as a rule if you hold some slight pressure on the injector wwhen the mold stops taking plastic can help. Being certain that you fill the injector with more plastic than you need in the mold helps too. Try "topping off" the injector port when you remove the nozzle from the mold....shoot a little puddle of plastic at the port. Bubbles in the head ends of baits usually are from something associated with the end of the injection so playing with things a bit will usually solve the problem. You may want to purge the injector as some people do...fill then eject back into the cup keeping the nozzle submerged and then re-fill and shoot your mold. When you purge the injector the nozzle never comes out of the plastic until it is filled to shoot. On rare occasions a seal leak can let air in the pump too but that happens so rarely I hate to even bring it up.