Hmm... Interesting.
You could use X-matter's antigravity to get out of the Earth's atmosphere, I suppose, but I don't think there'd be much point. X-matter is probably expensive, so you wouldn't want to jettison it if you didn't have to. And there are plenty of other, inexpensive and well-developed ways to get through the atmosphere. Like propellers.
Also, if your ship has exactly enough X-matter to perfectly cancel the gravitational mass of itself and its passengers and cargo, it would float into the air all on its own, just like a balloon. Balloons float because they weigh less than the air they displace. A well-calibrated X-matter ship would weigh nothing at all.
As far as interplanetary travel goes, I see two possible approaches.
The simpler, by far, is to make sure that the gravitational mass of the regular matter of your ship is exactly canceled out by the antigravity of the X-matter on board at all times. This lets you ignore gravitational fields entirely. Simply point your ship at where your destination (whether that be the Moon, or Mars, or whatever else) is going to be at some time in the future, then burn your engines to make sure you get there at the same time. You'll need to match speeds with your destination planet (or moon) once you get there, but that's the only real delta-V expenditure necessary.
As an example, let's take the Moon.
We start by floating out of the atmosphere, and then performing a burn that'll get us to the Moon's orbit in a reasonable amount of time. We can choose this entirely arbitrarily, and can make it as low as we like if we don't mind the trip taking a long time. But for the sake of example, a 2 km/s burn will get us there in 2 days and 5 hours, which seems reasonable enough to me.
Once we get to the moon, we'll need to cancel out that 2km/s with another burn, and also burn to match our speed with the Moon's orbital velocity, which is almost exactly 1 km/s. We can combine these into a single maneuver, by burning diagonally for about 2.2 km/s.
When we want to return home, we'll need to repeat the 2.2 km/s diagonal burn to put us back on a collision course with Earth, but we do not need to use propellent to slow ourselves down from 2 km/s. We can use a heatshield for that.
So that's to the Moon and back in four and a half days, with a total delta-V of about 6.4 km/s.
For comparison, the orbital speed in Low Earth Orbit (for spacecraft made of ordinary matter) is about 7.8 km/s. Putting a satellite into LEO requires more delta-V than that, to push through the atmosphere and get it up to altitude. And if you want to get from LEO to the moon, you'll need another 6 km/s. And yet another 6 km/s on top of that to get back to Earth.
In short: Using X-matter to cancel your gravitational mass (and carefully jettisoning it as you burn your engines, to keep your ship's total gravitational mass exactly zero) can cut the delta-V needed to get to the Moon and back by at least a factor of three. That sounds like a good deal, although it does still require jettisoning a lot of X-matter. The more efficient your engines are, the less X-matter you'll need to jettison.
Aside: Is X-matter chemically reactive at all? I know some solid rocket fuels use aluminium as an ingredient. If the X-matter that you're jettisoning while you're burning your engines can contribute to the thrust you're producing, that'd be much more efficient than just dumping it overboard.
As an alternative to keeping your ship's gravitational mass constantly neutral and relying on conventional rocket engines for delta-V, you could instead produce delta-V (as suggested in the OP) by using X-matter's antigravity properties.
A trip to the Moon by this method might look something like this:
You start by hauling your ship to a very precise location on Earth's surface, somewhere near the equator. Your ship, at this point, has considerably more X-matter than normal matter. At just the right time, you cut the tether and shoot into the sky.
Once you get close enough to the Moon that its gravity starts to become stronger than Earth's, you jettison some normal matter, making your ship's gravitational mass even more negative. This is necessary because Earth's gravitational well is much deeper than the Moon's. If you didn't do this, you'd crash right into the Moon.
At this point, you're somewhere between Earth and the Moon, but also a little bit ahead of the Moon in its orbit. The Moon's antigravity on your X-matter both slows you down and pushes you forward, helping to match your speed with its orbital speed.
The Moon continues in its orbit and passes by you just before you fully match speeds. You jettison some X-matter, bring your gravitational mass back into the positive, and use rockets to set yourself down in a very precise location on the Moon's surface.
When it's time to leave, you jettison some normal matter to take off. Because of where you landed, this counters the Moon's orbital velocity and puts you on a direct collision course with Earth. When you leave the Moon's sphere of influence, you jettison more X-matter to make sure the Earth doesn't push you away.
Once you reach the Earth, you can brake and land using heatshields and parachutes.
The exact amount of X-matter you'd need to jettison will depend on a number of factors, including the mass of your ship and how long you want the trip to take.
I've no idea which of these approaches would end up wasting more X-matter. But the second approach requires far less rocket fuel, so based on that alone, it'll probably be the preferred approach. That is, unless X-matter is so incredibly expensive that it's not worthwhile to use any of it at all.
And now to answer your last couple of questions:
A gravitationally-neutral object will be affected by centrifugal and Coriolis forces in exactly the same way as normal matter. If you launch it off Earth, it'll follow a straight-line path through the solar system, as seen from an observer in a non-rotating, non-accelerating reference frame. In any rotating reference frame, it will appear to take a curved path. Just like how a ball thrown on a spinning platform appears to curve to the side.
That is to say, the mass term in the centrifugal and Coriolis force equations is inertial mass, not gravitational mass.
You're right that a gravitationally-neutral object would not be affected by Langrange points. Lagrange points are places where gravity and the centrifugal force cancel out. Without gravity, they don't exist.
However, a chunk of X-matter with negative gravitational mass will have its own version of the L1 Lagrange point.
L1 is a point between (let's say) the Earth and the Moon where the Earth's gravity, the Moon's gravity, and the centrifugal force all balance out.
For ordinary matter, the Moon's gravity pulls away from Earth, in the same direction as the centrifugal force; while Earth's gravity must counter them both.
For X-matter, it's Earth's antigravity that pushes in the same direction as the centrifugal force, and both of those forces must be countered by the Moon's antigravity. So for X-matter, the L1 equivalent is closer to the Moon than normal-matter-L1 is. It still won't be a stable place to park a spacecraft, though. Any perturbation out of the plane of the orbit (or probably forward or backward, though I'm not certain of that), will send the X-matter flying off into interstellar space. And for X-matter, the other Lagrange points (L2-L5) simply don't exist at all.