Mr. Monk and the Airplane - S1-E13
Trivia: In "Mr. Monk and the Airplane," Monk and Sharona are boarding the plane when Sharona spies Tim Daly. She is very excited and says she watched him all the time on a show called "Wings." Monk says he never saw that show. Tim Daly and Tony Shalhoub were co-stars on Wings together for many years.
Answer: Stottlemeyer was already upset after the phone call. He was trying to get "Kevin" (who would have to be a judge, but no further character information is given) to issue a restraining order with no evidence of needing one, except that Adrian Monk said she needs one. Kevin said he would need to "sleep on it." So it's clear they've been trying to provide protection and unable to get the results they need, which seems to be based on no one trusting Monk the way Stottlemeyer does. He's just angry that they failed to protect Linda despite all their work. Although it does feel like a scene was cut, or altered, from the show that shows the futile attempts to protect Linda which built up to his outrage.
Bishop73