Not too bad for the changes needed to update it, just needs to actually be applied.

In data.lua around ::62, needs a "real" pipe connection now

pump.energy_source = {
  type = "fluid",
  fluid_box = {
    volume = 100,
    production_type = "input",
    pipe_connections = {
      {
        flow_direction = "input",
        connection_type = "linked",
        linked_connection_id = 1,
        hide_connection_info = true,
      }
    },
    filter = pump_fluid.name,
  }
}

In control.lua ...
... around ::68, can't hit the fluidbox array directly anymore

  struct.pump.set_fluid(2, {
    name = "pump-with-adjustable-flow-rate",
    amount = 100,
    temperature = struct.speed,
  })

...around ::78, both fluidbox access and the filter doesn't get copied to the entity any more

  local proto = entity.get_fluid_box_prototype(2)
  assert(proto)
  assert(proto.filter.name == "pump-with-adjustable-flow-rate")