Head lamp green wire is ground.
Yes, I can see the wire insulation damage. That's from one of those damned pinch connectors.
I'd guess your bike had a fairing on it at one time. However, what does the work is the wire inside the sheath. Examine the wire inside it for damage. If the copper looks undamaged then simply coat the insulation with Liquid Tape, and sleep easy.
http://www.caswellplating.com/aids/plastidip.htmlIf the internal strands have been cut, you can still save the wire and make it reliable. But, it takes more work. Unless the copper is tarnished, you can solder the bits back together and cover it with heat shrink tubing. This can be done where wires aren't in an area that is flexing routinely. If it is a short piece of wire, though, it may be easier to replace it.
Black taped wires are OK when the tape just provides insulation. It is the integrity of the connections under it that bears scrutiny. Is that solid and absent of corrosion? I'd prefer soldered slices under the tape. Sometimes heat shrink can't fit over end connectors, and tape is a reasonable alternative.
Those yellow tapped green wires in the bundle were done by the factory. You will probably find them soldered under the tape. But, I'd leave those alone unless you find some continuity issues with test equipment.
The black globs on the Dark Blue and White wires appears to be a patch of the insulation, in the same vein as the repair I mention you could make on the green headlight wire. The red heatshrink on the white wire splice could be over a soldered connection. Try to bend the center of it if it is very flexible, If so, it's not soldered and needs a do over. If it is stiff at the center and the heat shrink insulates it properly, it's only an asthetic issue with appearance, not function. It will be hidden in the headlight bucket, so passers by shouldn't point and laugh.
Nicks in insulation can be cleaned and patched reliably with that Liquid Tape product. Especially address those black wires. They carry +12v when the key switch is on. If the internal wire touches frame material, the fuse usually goes.
I can't see that sleeved wire into the connector very well. But, I suspect that's the battery or alternator power (red or red/white stripe) It's important that has a good insulating coating. If it has overheated, also check the block connector plastic for heat distortion and the terminals within for signs of heating/plating damage. Those terminals should be clean and bright, BTW.
I've never seen woven insulation on turn sig wire for these Hondas. Was that lamp cord? I'd probably replace that!
So far, I don't see anything the warrants a whole harness replacement. Though certainly there are things that need to be addressed. However, if concours appearance is important to you, rather than just reliable function, then do replace that that offends you.
Cheers,