just as a follow on to this problem, which I hope you"ve fixed by now...
the problem is caused by the underside of the seat base tapping the top (connector end) of the cdi's & breaking some of the connections on the internal circuit board. Some people have opened the cdi's & re soldered the 6 connections behind the plug & solved the problem that way. Yes you have to use a dremel or a fine saw blade & cut open the unit without damaging the curcuit board inside I have tried this fix myself & failed miserably 
Once you have replaced the faulty cdi you need to reposition the cdi units under the seat. they are originally fitted upright, with the plug at the top thus: I I, you need to position them lying on their sides thus: = (they actually fit one behind the other in this position) Honda do supply a proper holder that puts them in this position & was fitted as standard from, I think '94 (or possibly '96?) This arrangement puts them further below the seat base & avoids the tapping & therefore a reoccurence of the problem. Been there. done that.
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