Grade calculations are the same irrespective of the scale. A grade is a grade is a grade... How you calculate a grade is as follows, and once again, it works for all scales, all the way up to your back yard scale: first, take the number of units of height. You want a clearance of 3"? Then inches is your unit of measure. Now you find out how many inches of travel you need to achieve your clearance. You may find that your plan calls for 7'. You must deal with inches, though, since inches is what the first dimension, the height, was measured in. Seven feet times 12" per foot equals 84". So you need 3" of height and you have 84" to achieve it. We'll forget about the transitions curves from level to full grade. The formula for a grade, regarless of scale remember, is "rise over run". Your rise is the 3", your run the 84". Rise over run, mathematically is expressed as 3/84 in this case, or "three divided by 84". If you are weak in long division, use a caculator. Enter "3", hit the divide button, and enter "84". Press "=" button. You get a displayed value in the readout of "0.03571428.....etc". Just pay attention to the first three whole numbers, the "357". It is to be read, for our purposes, as "three point five seven" percent, or just a hair over 3.5%.
How steep is that? Very. But you may be stuck with it if your space is tight and you are also stuck on a plan calling for that rise in that space. Just be aware that your engines will work hard to get a train of any length up that grade.
The worse news is that you must ease into and out of that grade. Your engines won't be able to keep moving going from level track to even a 1.5% grade if it is abrupt. You must curve slowly up to the grade, and that takes space...on each end!

You can see that the middle portion of the grade must be even steeper than 3.5% in order to get the 3" clearance you said you needed. Even harder pulling for that poor engine.
Of course, you can double engines if you need to and if you have two that will work well together.