I can't seem to figure out how to get a great picture of a tongue and groove living room that also has ceiling molding, off of one of my houzz ideabooks to show you that this style you like, can and does look good together. I picked the collaborate feature and put your user name in it to try and share this pic.

Thanks Orangecamera. It's still a work in progress and mud everywhere Sorry we did look at having the steps' off set' but it didn't seem to go with only three steps and a small area. And about the zen well the cats are doing that for us much to our disappointment (it's still like a litter box to them). We went to the garden supply place still not knowing what kind of stones we were getting. We stood in front of all the bins (there where many). We even looked at mixing some. The grey stones had a bin more the size we wanted but we ended up getting the golden fleck. It was a little smaller, which was a shame, the bigger ones were so mixed in their grading it looked too messy. So this is what we finished up with. It was seagardens that got me thinking away from grey and nwduck mentioning the drainage. So this has really helped. Also everyone seem to think the wooden steps needed to go a lot lower. Next it's figuring out where the large river stones should go

I found this photo online, perhaps it will help. In this picture the crown molding on the cabinets flow from the kitchen to the adjoining room. Maintaining continuity with the color and some of the trim detail will make the rooms transition nicely. Don't overlook the details like hardware finish, lighting and plumbing fixtures as these elements can also tie the two styles together. I hope this was helpful.

I'm no architect, but I agree with yours. Instead of large windows in the loft above the garage, what about a high, short, but long window....non opening? Here's some examples