Sorry, no info on Philippines.
But while in Indonesia, I met a German biker, who had ridden from Europe to Vladivostok & Japan, then shipped by air to Taiwan, but the bike was not allowed entry, so he shipped onwards by air to Jakarta (and sadly his bike was then stuck in customs in Jakarta, even though he had the carnet, but that´s another story).
Today flying is so cheap and much, much quicker than going by sea, it´ll be tough to find some long-distance ´steamers´ or ferry routes. May be some ro-ro connections could exist, but (officially at least) you are usually not allowed to go on the same ship.
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