Use the MVA method for the same reasons HH mentioned. It gives you an intuitive feel for short circuits, motor starting voltage drop, and impact of larger/ smaller transformers. Ohmic method has too many zeros to get lost. MVA method is not as exact but it is close enough for most industrial applications.
"Short Circuit ABC- Learn it in an Hour, Use it Anywhere, Memorize No Formula" is the title of Moon Yuen's IEEE paper that HH referenced recently in another thread. (I'm partial to this method, since I worked with Moon).
ETAP seems to use a combination for input data. Some input forms require % values, some per unit and on others ohmic values. I'm currently working on a large ETAP study (>1500 busses) and am spot checking the data with the MVA method. It helps pickup input data errors.