Yes, you need to remove the duplicated income. In the PA interview "Update" the "Income and Adjustments" section. You will arrive at a page titled "Compensation Summary." You should see two lines with the same employer with one having DE as state ID and the other PA. Edit the DE line. Mark the "Entire Amount as non-taxable in PA" since you already have the 2nd line from the employer with taxable PA income.
This will remove the duplication on your PA return.
The income was still taxed in DE on your DE return and the information from that return flows to the "Credits" section on your PA return. You can "Update" the "Taxes & Credits" section in the PA interview and there you will find the credit for taxes paid to another state (DE).
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