Was time entered into the model as dummy variables (3) or 2 dummy variables with a reference group? How is it entered into the model. Also you plotted predicted probabilities exported from model, so scored data. I would imagine looking at the actual coefficients would be more telling in the pred probs may be higher or lower due to other factors. Did you test for interactions?

Can you provide a descript of the model y = bo + b1 +,...bk

Can you provide the coefficients.

Simpson's paradox would be the changing in direction of an effect when stratifying it.

Can you also provide the percentage values for the 3 groups.

I think we just need a little more info to help. Also can you post a link to your other posts elsewhere, so we can see what feedback you got and info you have provided. Thanks!