I don't know from personal experience, but many people have said toe clips are much more difficult than clipless, citing the getting in to them issue specifically.
Where I do have experience is in being nervous about getting clipless. My LBS recommended SPDs for the type of riding I do (commuting, errands, mostly around town). They fitted me and adjusted the release tension to a mild setting.
After showing me how to clip in and out correctly (and several of the incorrect methods to avoid), they made me do stop-and-start drills in the parking lot for a full half-hour before letting me pay the bill and ride home. I must have had 100 stops and starts in before they told me I could quit.
Because of that, I was confident with them the first time on the road, and have never had the hugely popular clipless fall.
Summary: They're easier to use than clips, and can be adjusted for minimal release tension. Then, use drills early to set the habit.
Your bike shop sounds awesome.