In this paper we present the complete one-loop matching conditions, up to dimension-six operators of the Standard Model effective field theory, resulting by integrating out the two scalar leptoquarks $S_{1}$ and $S_{3}$. This allows a phenomenological study of low-energy constraints on this model at one-loop accuracy, which will be the focus of a subsequent work. Furthermore, it provides a rich comparison for functional and computational methods for one-loop matching, that are being developed. As a corollary result, we derive a complete set of dimension-six operators independent under integration by parts, but not under equations of motions, called Greens basis, as well as the complete reduction formulae from this set to the Warsaw basis.
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