Chisel 3 supports multiple clock domains as follows.

Note that in order to cross clock domains safely, you will need appropriate synchronization logic (such as an asynchronous FIFO). You can use the AsyncQueue library to do this easily.

class MultiClockModule extends Module {
  val io = IO(new Bundle {
    val clockB = Input(Clock())
    val resetB = Input(Bool())
    val stuff = Input(Bool())
  })

  // This register is clocked against the module clock.
  val regClock = RegNext(io.stuff)

  withClockAndReset (io.clockB, io.resetB) {
    // In this withClock scope, all synchronous elements are clocked against io.clockB.
    // Reset for flops in this domain is using the explicitly provided reset io.resetB.

    // This register is clocked against io.clockB.
    val regClockB = RegNext(io.stuff)
  }

  // This register is also clocked against the module clock.
  val regClock2 = RegNext(io.stuff)
}

You can also instantiate modules in another clock domain:

class MultiClockModule extends Module {
  val io = IO(new Bundle {
    val clockB = Input(Clock())
    val resetB = Input(Bool())
    val stuff = Input(Bool())
  })
  val clockB_child = withClockAndReset(io.clockB, io.resetB) { Module(new ChildModule) }
  clockB_child.io.in := io.stuff
}

If you only want to connect your clock to a new clock domain and use the regular implicit reset signal, you can use withClock(clock) instead of withClockAndReset.

class MultiClockModule extends Module {
  val io = IO(new Bundle {
    val clockB = Input(Clock())
    val stuff = Input(Bool())
  })

  // This register is clocked against the module clock.
  val regClock = RegNext(io.stuff)

  withClock (io.clockB) {
    // In this withClock scope, all synchronous elements are clocked against io.clockB.

    // This register is clocked against io.clockB, but uses implict reset from the parent context.
    val regClockB = RegNext(io.stuff)
  }

  // This register is also clocked against the module clock.
  val regClock2 = RegNext(io.stuff)
}

// Instantiate module in another clock domain with implicit reset.
class MultiClockModule extends Module {
  val io = IO(new Bundle {
    val clockB = Input(Clock())
    val stuff = Input(Bool())
  })
  val clockB_child = withClock(io.clockB) { Module(new ChildModule) }
  clockB_child.io.in := io.stuff
}