Since you haven't specified what displacement range or style of bike you are looking at, we'll give you multiple options to choose from. 

The Royal Enfield Hunter 350 is a good option because it will be comfortable, stylish and will give you decent performance and fuel economy too. Another bike worth taking a look at is the Honda CB300F, which is a friendly naked bike that will also be comfortable and fuel-efficient. You can also take a look at the Hero Xpulse 210, which will be far the most comfortable machine of all the bikes mentioned here. 

If you want to stick to the same displacement bracket, bikes like the TVS Apache RTR 160 4V and Bajaj Pulsar N160 are the options to consider. Take a test ride of everything you're considering before making a decision.  

Since you have a commute that has some highway riding, we'll recommend bikes displacing 250cc or more so you can maintain decent highway speeds without feeling the engine is strained. 

There are loads of options in your price bracket, like the Royal Enfield Hunter 350, TVS Ronin, Honda CB300F, Bajaj Pulsar N250, Hero Xpulse 210 and TVS Apache RTX 300. 

Take a test ride of all the machines you shortlist before going ahead with your purchase. 

Of the three options you have shortlisted, all are practical and comfortable options which will serve you well. Since pillion comfort is a priority, try to go for a bike/variant which has a single seat. Also, take your preferred pillion with you for a two-up test ride on all the machines. This will help you gauge each bike's strengths and weaknesses for yourself. 

You should also consider the Bajaj Pulsar N160 in the same category for its smooth engine, plush suspension and comfortable seating position. 

If you are open to extending your budget by a little bit, you can also opt for the Royal Enfield Hunter 350, which will give you a different riding experience than these commuters but will simultaneously also be a comfortable machine.

Both the Honda H'ness CB350 and the Royal Enfield Hunter 350 are great step-up options from your current Honda Shine 125 and will be able to handle bad roads reasonably well. 

However, if you want something that can tackle bad roads without breaking a sweat, the Hero Xpulse 210 is our recommendation. 

With their feet forward and fists-in-the-wind riding position, cruisers tend to put a lot of weight on your back and over less-than-ideal roads, which can transmit a lot of the bumps through to the rider. If you stay in an area with less-than-perfect roads, we would recommend you look elsewhere. 

The Hunter, with its upright, neutral ergonomics and pliant suspension, will be able to handle bad roads much better. 

A test ride will help you decide whether the Meteor or the Hunter is the best bet for you. Other options you can also look at are the TVS Ronin and the Honda CB350 models. 

Of all the options you have shortlisted, we'd recommend choosing between the TVS Ronin, Royal Enfield Hunter and Honda CB350. 

This is because all three are proven products with reliable engines, two-up comfort and decent fuel economy. Coming to the Yamaha XSR155, that bike is a very new launch, although it does come with familiar underpinnings and a trusted Japanese badge on the tank, so we would recommend you take a test ride for yourself before you go ahead with your purchase.  

Bikes you should take a look at are the Royal Enfield Hunter / Classic / Bullet / Meteor 350, Scram 440, TVS Ronin and Honda CB350 trio. All have smooth, torque-rich engines, comfortable seats for two passengers and great suspension comfort. 

These factors will help you on both broken city roads and open highways. We would recommend you take a test ride of all machines with your wife so as to ascertain which one is best for you.