Errors while running project with "show command line afterwards" mode after Pycharm update

Hi, 

I've recently updated to 2017.3, and when I try to run my projects with the IPython console (by checking the "show command line afterwards box", which worked flawlessly before) I get AttributeError for the first object created, meaning that somehow the interpreter skips some part of the code or an import. I'm can't be sure, since when debugging it works fine or when running in batch mode. 

Is this only happening to me? Any ideas guys? 

Thank you very much in advance.