Maybe Yes,although plygame is responsible for removing the item.
I specially recorded a video to show plyGame works as intended. If you are using other assets in combination then it is not fair to say plyGame is the culprit here. As far as I am concerned it works until you can show that it does not work (without any other assets present which might be causing the problem). I can not provide support on integrating other asset with pyGame since I do not own them most of the time and do not have the time to research how they work if I did happen to get a copy.
plyGame will not auto-pickup an Item if it is not marked as such. But you already confirmed they are not set for auto-pickup. Did you create any Blox that deals with Items and the Bag? How are you picking them up initially? I do not see any mouse cursor so I can not tell whether you click on them or press a keyboard button or just move close to auto-pickup. Does Invector not do something to items and bags (I see mention above that there are inventory related scripts in Invector)?
Create a clean project with just plyGame in it and do a test. Only if it works can you move on to adding whatever else you want present, like Invector. This will help you narrow down when the problem occurs and why.