These are warnings that normally don't cause problems for PEST. Nevertheless, you should take them into account. E.g., double check your parameter bounds and make sure they do reflect the natural parameter variance; I.e., they reflect 4 or eventually 6 sigma distance btw. the upper and lower bounds (if parameters are log transformed, then take also that into account).
As far as the other warnings are concerned, I'm not sure how you made those settings causing the warnings. A normal PEST setup through standard GUI tools shouldn't cause inconsistent settings in the PEST control file, so I'm afraid you made alterations to your PEST setup after the control file was first generated by the GUI. An indication for that might also be the last warning, which tells me that you removed some parameters from the inversion, but didn't fully rebuild the control file causing MAXSING to remain at a previously set value.
When using PEST to calibrate a model, you should first make sure your model is at least conceptually correct and manually calibrated to some extent, and then understand the basic concepts behind PEST. Please refer to the freely accessible documentation from the PEST website.