First, the honey:
Now I don't know a lot about honey, but from what I understand is that it is good and bad for you. Bad, because natural and homeopathic as it may be, it is still sugar. Good because it is homeopathic and natural so better for you than sugar. If you are looking for an alternative to honey, I would recommend agave nectar, as it has a milder taste than honey, and, in my own opinion, will not overpower the taste of your green tea.
Second, bad for your liver?
I've never heard this before. Tea is great for you; the only things that can make it bad is what you put in it (2 tsp of sugar per cup + 6-8 cups a day = a lot of sugar).
Last, the right way:
The "right" way is whichever way makes you the happiest. However, there are a few things that most serious tea drinkers seem to agree on.
1) Don't microwave your water if you can help it. Proper temperature is very important.
2) Don't use tea bags. 9.5 times out of 10 the tea in tea bags is just crap. Tea bags and tea balls don't leave enough room for the leaves to expand. If you want the "best" results, loose leaf tea is the way to go.
3) Use quality water. Avoid distilled, sparkling or tap water.
Hope some of this helps.