The property inspection recommends a structural engineer primarily due to the master bedroom door scrapping the floor and the floor near the door not being level.  

If you need them for new work, then you would have your GC or engineer put them together.

One thing we do is we talk to a lot of architects and engineers, as they are on the front end of it.

I have spent the last year changing zoning regulations and completing preliminary engineering work for the project to move forward so at least in my mind our intent has been clearly established that this is an investment property. 

Looking for an engineer who can draft a well and septic plan in Montgomery County, MD.

My partner and I were going to do the job ourselves we had the home surveyed, appraised, feasibility study done, inspected , engineering plans drawn and architectural plans drawn however we are short about $120k for purchasing costs.

But after you account for architect fees, design fees, engineering, and construction costs of $300/PSF+ you are going to end up spending more to build new, almost guaranteed.If you're new to real estate investing and construction, as others have suggested, you should find a house that is already built. 

Second, even if planning is approved, you'll need to hire a structural engineer to get drawings, electricians to reservice wires, a GC to manage the whole operation, etc. 

Find a new architect or tell him you are designing per X budget and after plans are complete if it’s over budget you are not paying for any redesign costs to value engineer then project.

Having a pest inspection done is helpful as well because it notes the areas of dry rot, fungus, termite damage, water damage, etc. and give you actual bids on how much it would cost to repair.(6) is not a major repair, as Greg mentioned.For (2), (3), (5) -- any foundational notes like these I would agree to consult with a structural engineer or expert, as it likely suggests in the home inspection.