Mr. Monk is Someone Else - S8-E4
Continuity mistake: After the FBI agent asks Monk to go undercover, Stottlemeyer puts his hands on Monk's and Natalie's shoulders and starts escorting them to the door. When the shot cuts to a wider angle, he does this over again. (00:06:05)
Mr. Monk is Someone Else - S8-E4
Continuity mistake: When Monk shoves Harold Krenshaw, there are two ships sitting in the harbor in the background. Later, when the FBI shows Monk photos of the incident taken from the exact same angle, the ships aren't there. (00:27:30)
Mr. Monk is Someone Else - S8-E4
Continuity mistake: In the hotel, when Monk sits down next to Lola, the couch pillows change positions between shots. (00:15:10)
Mr. Monk's Favorite Show - S8-E1
Continuity mistake: Near the end when Monk is doing his usual "Here's what happened" speech, he hands an envelope to the dad. A few minutes later he walks away from the dad, who still has the envelope in his hand. Immediately, the shot changes and Monk, who is not near the dad, has the envelope.
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