Probably Fort Wayne for Indiana, but Biden may have narrowly won it. After Fort Wayne it would be Noblesville, given that Biden won Carmel and Fishers by very narrow margins.
Biden did narrowly win Fort Wayne 50% to 47%
Of states this is what I have
Alabama: Hoover? (Might be Tuscaloosa, but probably Hoover but need confirmation)
Alaska: Fairbanks
Arizona: Mesa
Arkansas: Fort Smith
California: Bakersfield
Colorado: Colorado Springs
Connecticut: Shelton
Delaware: ?
Florida: Hialeah
Georgia: Not sure, but think Valdosta
Hawaii: Laie (not sure but I believe it was this)
Idaho: Meridian
Illinois: Orland Park
Indiana: Muncie (not certain, but likely this one)
Iowa: Sioux City
Kansas: Wichita
Kentucky: Owensboro (possibly Bowling Green, but I think Owensboro)
Louisiana: Lafayette
Maine: Brewer
Maryland: Westminster (not certain but looks like it)
Massachusetts: Dracut
Michigan: Sterling Heights
Minnesota: Lakeville
Mississippi: Southaven (not certain on this)
Missouri: Springfield
Montana: Billings
Nebraska: Bellevue
Nevada: Henderson
New Hampshire: Derry
New Jersey: Lakewood
New Mexico: Rio Rancho (not certain on this)
New York: North Tonowanda (not 100% certain on this)
North Carolina: Concord (not certain as don't split absentee by precinct)
North Dakota: Bismarck
Ohio: Parma
Oklahoma: Oklahoma City
Oregon: Medford
Pennsylvania: Altoona
Rhode Island: Coventry
South Carolina: Mount Pleasant
South Dakota: Sioux Falls
Tennessee: Johnson City (might be Murfreesboro have to double check)
Texas: Lubbock (Trump definitely won Lubbock, might have won Plano not 100% sure)
Utah: Provo
Vermont: Highgate
Virginia: Salem? (Largest independent city, not sure if larger of those within county)
Washington: Spokane Valley
West Virginia: Parkersburg
Wisconsin: Waukesha
Wyoming: Cheyenne
Clinton won Muncie by a few points, so it's unlikely Biden lost it. Valdosta appears to be narrowly Biden based on precinct results.
I'm pretty sure for Georgia, it's Milton in North Fulton County, which Trump won 54-45.