Go through the bill of quantities with a fine tooth comb and apply huge attention to detail. All sorts of things are slipped in as grey area there and that is where your cost leakage occurs.
Speak to the builders once a day or more and really get to know them on a personal level. Stay closely in touch with the project.
Understand fully what they are doing to your house. Ask questions and read things up if necessary.
Be a good client by not changing your mind at all ever (unless it's patently clear to everyone a previous decision is utterly bonkers). Be warm, friendly and civil at all times and provide teas and coffees and occasional biscuits/cakes. Be very human.
Most builders have extraordinary levels of technical expertise but a few less so. It's your job to check the people working for you know what they are doing, and leaving this exclusively to the project manager and/or architect is not a good idea. As the Rusdian proverb says, trust, but verify.
If you really engage with the project then a 10% contingency may well be fine. Not all Victorian or Georgian bodges need fixing - many of these houses were Jerry built to a point but stay standing perfectly well. This is where judgement can have helpful. The rules of restoration are:
Keep it watertight, but let the house breathe.
Keep it warm, but don't cook the plaster.
Keep it ventilated, but not draughty.
Have safe gas and electrics, preferably with a sockets in every corner.
Keep it quiet, with properly finished and well-fitting skirting, cornice, flooring, wood doors, well-fitted and smooth running windows. If the boys you can't see are well-crafted then your noise levels will be satisfactory.
Everything else is aesthetic.