Yes!! Isn’t the IRS wonderful?
For purposes of determing the standard deduction for a dependent, taxable scholarships are considered to be earned income, which is a good thing. See the footnote at the bottom of the Standard Deduction Worksheet for Dependents on page 30 of the 1040 instructions.
https://www.irs.gov/pub/irs-pdf/i1040gi.pdf
In determing whether or not the kiddie tax applies (form 8615), taxable scholarships not reported on a W-2 are considered to be unearned income. See page 1 of the instructions for form 8615.
https://www.irs.gov/pub/irs-pdf/i8615.pdf
If the research stipend is a taxable scholarship, and given the numbers you have provided, the kiddie tax would never come into play, because all the amounts reported on the W-2 and 1099-MISC would be covered by your son’s standard deduction.