Values for the gas constant are tabulated for various different units as a matter of convenience, since when carrying out calculations, the units of the gas constant need to match out with the other values being used (which in turn depends on the expression being used in the calculation) and its often easier to look up a value of the gas constant than to convert everything else into a specific set of units.
Generally, chemists aim for SI units, however there is a great deal of discrepancy between, for example, chemists in the USA vs. chemists in Europe. This is especially apparent in physical chemistry.
For example, the SI unit for energy (+work, +heat) is joules, such that the 'correct' way would be to express energy is terms of kJ/mol or J/mol, however, for historical reasons, many american chemists still work in calories (ending up with kcal/mol etc).
In terms of the volume question, we have equally confusion.
For small quantities, volumes are measured in units like millilitres, micro litres etc, though cubic centimetres (CC) do occasionally get used. For calculations involving moles/concentrations however, we default to decimetres and metres cubed. (you should note that 1 decimetre cubed == 1 litre)
In conclusion, in an ideal world we'd all use SI units, but various quirks have meant that we don't. If in doubt, look at what other people in the literature are doing, and, whatever units you choose, make sure that the units in your calculation match up.