Just my opinion, but there are so many other factors related to a job that I'd rank over a 1099 vs W2. If all else were equal, I'd go with the W2 with good benefits. Yeah, you can learn to work the system, right off everything you can, and hire a good accountant, or you can be like me where my group covers everything and I meet with my accountant for 30 minutes each year. To calculate my miles on call, write off and keep receipts of meals while on call, and crunch numbers until you border illegal ... yeah, not for me. (No offense to the 1099ers out there who love it, just not for me, I like to KISS).
Issue is unless u work for big academic place with state govt benefits or work with private hospital base that's hospital employee, You probably won't get many good benefits working for AMC or small private group as a W2.
When I worked in academics. I "only" got 5 weeks of vacation which seems low on paper. Private AMcs offered 8 weeks off. But many force u to take one full week at a time.
I could take random days out of my 5 weeks so can stretch my vacation days more. Plus they rolled over so I could have more the following year.
Plus got 2 weeks paid cme also. And sick leave was very liberal. Essentially could take 12 sick days a year.
If my kid had dental appt I would schedule a day off.
So my 5 weeks vacation ends up being close to 9 weeks off.
And academics can offer u close to $50k pretax voluntary deferral (401a, 403b and 457b). Plus they throw in $20-25k also.
So the math is very complicated with W2. Cause many AMCs don't offer much in terms of tax savings. And that's a real killer since u get taxed a lot as W2.