I'm sorry to hear about that David,

First, those places the parts came loose need to be cleaned so the new glue will stick to the wood and not to the old glue residue, pliers or hobby knife are very useful, not to over do it just reveal some wood.

Now trying to think why its happening, maybe its that you put it first in that cup and then apply it with the pencil this is something I never did, for me it was a little drop from the bottle nozzle and spread it with a Q-tip, thats why I started that thread how to apply aliphatics, I couldnt get the bottle in every corner.
once the glue is out of the bottle its starting to cure and kick in at the first place its in contact with.
anyway its good to run a dry practice run with closed bottle and a Q-tip over the place first.
I also did those tests like seamus did earlier on scrap wood to find the right method of work with the aliphatics.

Alex