I work in a similar way, but when I identify a section of the clip I want to use, I mark it in the viewer, then set an in and out point and drag that to a sequence. I name the sequence by topic. When complete, the sequence has all the clips I want. BTW, you can still add markers to the clip when it’s in the sequence by selecting the clip, positioning the playhead and hitting M.
John
MacPro 8-core 2.8GHz 8 GB RAM OS 10.5.8 QT7.6.4 Kona 3 Dual Cinema 23 ATI Radeon HD 3870, 24″ TV-Logic Monitor, ATTO ExpressSAS R380 RAID Adapter, PDE enclosure with 8-drive 6TB RAID 5
FCS 3 (FCP 7.0.2, Motion 4.0.2, Comp 3.5.2, DVDSP 4.2.2, Color 1.5.2)
Pro Tools HD w SYNC IO & 192 Digital I/O, Yamaha DM1000, Millennia Media HV-3C, Neumann U87, Schoeps Mk41 mics, Genelec Monitors, PrimaLT ISDN