Living in the US, working remotely for a company not in the US

My situation is relatively niche. My wife is a Japanese citizen with US permanent residence and she has lived in the US for just about 2 years now (first year where we can't exclude her income based on some foreign residency). She currently works for a Japanese company, with no US presence, remotely from the US. She's worked for the same company for years while in Japan, and they did all the work? to get here legally able to work for them while in the states. She currently doesn't pay Japanese income tax, but does pay the Japanese-equivalent of medical and SS tax. No tax professional wants to help because it's foreign tax. (I tried talking to 4 different tax accountants in my city last year and they all said they couldn't help or just ghosted me). Leaving me to just try and file myself online.

I think the solution is relatively simple, we need to pay US taxes on her portion of income. I've tried a couple different software to file, and inputting her portion as 'foreign earned income', but I just want to make sure I'm doing things right. Would it be easier to just act as if she received a W2 and fill out info there as if no tax was withheld? I understand she can probably deduct some amount that she paid into SS (and maybe medical?), but none of the software online is asking about that.

Software I used: FreeTaxUSA (didn't realize they are useless for foreign stuff), OLT, and TurboTax