There is a good chance that Niger closure is just the usual 'barn door after the horse has bolted' reaction and it will be open again by March, but overall it's not a good year to be visiting the central Sahara!
Am I better to just consider coming down through Egypt/Sudan/Ethiopia/Kenya and give up on West Africa all together?
Yes because you can plan that route with confidence (rumoured new civil war in Sudan nowithstanding. One imagines that will be mostly in the south anyway).
Is it ever likely to get any better/safer in Niger?
Much more so as things stand. East side has no AQIM scourge. Come to think of it I am not sure how you would have got from west Africa to Kenya without going down to Botswana at the very least.
It comes and goes (as is the way) but trans Congo or Chad to Darfur are regarded as much of a risk as north Mali.
Any idea on how long or hard east africa would be?
I have not done it myself but it's the easiest way overland to Kenya unless you start in SA. The difficulties are merely bureaucratic (visa acquisition - see this) + the Wadi Halfa ferry dance and some find, the people in Ethiopia.
But apart from the safari aspect on the east side, many travellers say Sudan people and Ethiopia landscape and culture are highlights.
This is a good blog - recently finshed - there are many others.
Ch
I have recently edited trans Africa routes so am brimming with secondhand expertise.
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