We calculate the -wave contribution to the proton-proton fusion factor and its energy derivative in pionless effective field theory (EFT) up to next-to-leading order. The leading contributions are given by a recoil piece from the Gamow-Teller and Fermi operators, and from relativistic suppressed weak interaction operators. We obtain the value of $(2.5\pm0.3 )\times 10^{-28}~S(2.2\pm0.2) \times 10^{-26}~$ for its energy derivative at threshold. These are smaller than the results of a prior study that employed chiral EFT by several orders of magnitude. We conclude that, contrary to what has been previously reported, the -wave contribution does not need to be considered in a high-precision determination of the factor at astrophysical energies. Combined with the chiral EFT calculation of Acharya {\it et al.} [Phys. Lett. B \bf{760}, 584 (2016)] for the -wave channel, this gives a total threshold factor of $S(0) = (4.047^{+0.024}_{-0.032}) \times 10^{-23}~{\rm MeV~fm}^2$.

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