The group were visiting Real Radio Scotland when Jones knocked over a cup of coffee into the mixing desk. The "sophisticated and very expensive" piece of equipment was left "absolutely useless".
Despite having a no-liquid rule in the studio, presenter Paul Harper allowed the band members to have their coffees while recording the chat.
"I couldn't believe it when the coffee fell into the desk," he said. "Danny started shouting to the other guys, 'Someone get your T-shirt off and mop it!'"
He added: "He also broke his 3GS iPhone in the commotion! Poor Danny was very apologetic and I'm sure he felt pretty bad about what happened."
Harper posted a video of the aftermath on YouTube. In the clip, Tom Fletcher jokes that Jones is "notorious" for spilling his drinks.
"When Danny comes over to my house, he spills something every time," he revealed. "That is not an exaggeration!"
McFly release their new single 'Party Girl' on September 5.