Hi Matt,
I'm a commercial broker in Southern California and I handle leases very often. If I were helping you find a spot and you came to me with these questions, I would first ask what type of business you are embarking on. The type of business dictates the type of property you will be in and the type of property you sign a lease for has different standards for tenant improvements, security deposit, minimum lease term, etc.
I can answer for us locally here in So Cal but there may be different standards for landlords in Boise. Nonetheless:
"Are there any instances where the landlord should help with the cost of renovations?"
Absolutely yes. Depending on the local market, landlords typically offer certain concessions. Concessions could be: lower base rental rate, credit toward tenant improvements, or free or half rent for one or more months. The landlord will be more likely to make concessions if you sign a long lease term. For example: You may ask for a significant tenant improvement allowance or credit in lieu of free rent during the term. If you wanted a couple months of free rent, relatively low lease rate, and a relatively short term, expect to be paying for your own TIs.
Having said all of that, I always say to my tenants that I represent: If our first offer gets accepted, we didn't ask for enough. Ask for the best case scenario for you and depending on how desperate the landlord is to have tenants, expect to end up somewhere in the middle.
Long story short... it depends. If the upgrades are truly upgrades, the landlord might prefer that you leave them. This is also relevant to the landlord paying for the tenant improvements because the landlord will be more likely to be willing to pay for your improvements if they add value to many tenants and they can keep the improvements after you move out. Any specific improvements will definitely need to be removed.
Sounds like you're starting your business, so obviously you won't have a business track record. Here in Southern California we have 1% vacancy rates in many industrial markets so landlords can afford to be picky with their new tenants. I have had very qualified clients rejected because the landlord is waiting for somebody to come along with a ridiculous offer.
Because your business will not initially be able to sustain the rent, expect the landlord to ask for a personal guarantee. Tell them your story and hopefully they will buy into your business and trust that you will be successful. The more you can give the landlord, the better. When you submit an offer to lease a space, build the case that you're going to be great tenants.
At the end of the day, landlords only want 2 things:
1. No brain damage from their tenants.
2. Their rent checks.
Keep in mind that if you can prove to the landlord you're going to be a hassle free tenant that always pays rent, you're a dream tenant.