tax rep vs. company-handled taxes

I’m leaving Japan and planning to appoint my friends as my tax representative to get the tax refund for the national pension lump-sum withdrawal . My company’s compensation/HR team will still handle rest of the taxes ( retirement tax, resident tax, year-end tax adjustments etc)

I just want to confirm — will having a tax representative for the pension refund cause any issues with my company handling the rest of my taxes?

Thank you !