Challenges using the tax calculator

I know that I need to adjust my W4 because last fall I started a new job with a higher salary, and when paying taxes this spring, we owed enough that there was a penalty added. Clearly, my spouse and I need to adjust so that more taxes get withheld.

However, using the tax calculator isn't very straightforward for me, since my income isn't even throughout the year. My paychecks this spring (& thus the amount withheld) have been higher than they will be for the rest of the year, so using the figures on my most recent paystubs doesn't lead to an accurate reflection of my current salary.

Any tips for using the tax calculator effectively?