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Only five words put P second and S third, and they come from three unrelated fields.
UPSET is everyday English. APSES and APSIS come from church architecture, OPSIN from the biology of vision, and UPSEY is an archaic word for a drinking bout.
It is common as a verb, a noun and an adjective, which no other entry here manages. If a puzzle confirms P at two and S at three, it is almost certainly the answer.
A and U each take two of the five, with O taking the last one. Five of the five begin with a vowel, and no consonant produces this pair at five letters.
The fourth box is nearly as narrow, with only two letters appearing across the whole group. E takes three of them.
A semicircular recess at the end of a church, usually behind the altar. APSES is its plural and APSIS a variant singular.
A protein in the retina that combines with vitamin A to detect light. It is standard vocabulary in vision science.
APSIS is also used in astronomy for a point of greatest or least distance in an orbit, where its plural is apsides. The two words overlap awkwardly.
A drinking bout, or a phrase used in old drinking toasts. It is thoroughly archaic.
Zero of the five carry one, so a repeated letter is not something this page produces.