The work describes a modified QqTOF platform where ultraviolet photodissociation at 266 nm was added to a chimeric commercial collision cell suitable for collision induced dissociation and electron activated dissociation. The system's performance was investigated for the analysis of pesticides using all three activation methods in a single LC-MS/MS analysis with the aim of additional structural confirmation. A workflow was developed for the screening of 168 pesticides in juices and wines, applying first an untargeted data independent acquisition LC-SWATH MS screening (retention time, isotopic matching, accurate mass, and MS/MS spectrum) followed by a confirmatory analysis based on targeted scheduled MRM HR with CID, EAD, and UVPD MS/MS spectra. An in-house MS/MS library was built with EAD and UVPD spectra for identification. A column-switching setup with on-line dilution was implemented to allow direct injection of juice and wine samples. The workflow applied was used as proof of concept for pesticide screening in 37 white and red wines and 21 fruit and vegetable juices. Finally, the concentrations and the limit of detections were estimated in the wine samples.