He is in HOT waters. Yamaha needs to improve on the bike and this is not going his way, it's simple but he needs to adapt to it.
If you read MCN 28th 03 2014 you'll notice that the M1 have evolved to allow to suit Rossi better, this doersn't come with a 2013 chassis and settings, they tried this, it didn't work. They had to change the bike for 2014.
Since they had issues with tyres grip from Quatar and Losail is generally OK for Yamaha, they still don't know what will happen in the next races, wait and see....
Yamaha Racing: Race Report, 23/03/04.
Valentino Rossi - 2nd, +0.259, 22 Laps
"I’m very happy but a little bit upset because I lost. Marc is very strong and I enjoyed very much the whole race. It was a great race, very funny from the beginning, I started from behind and I had to risk in the first laps. I was very precise and didn't make any mistakes. At the end I played my card with Marc but he was stronger than me so he won and he deserved it. It’s the first time it looked like an old race from MotoGP from ten years ago, all together on the same pace, some mistakes, going wide and so on. Maybe Dorna had a great idea! The Yamaha is always good in Qatar and I worked very hard in the practice for the race. I’m very happy with the work of my team and the bike was great in the race too. But anyway I am so happy for this start to the year, now we have to continue like this. Usually Jorge is so fantastic and so strong in the first laps so I don't understand what the mistake was.”