The troposphere — the lowest layer, 0 – 12 km, in which "nearly, all weather phenomena take place". The primary reason is that the troposphere is heated from the Earth's surface below, so its temperature falls with height (about 6.5 °C per km), and warm air near the ground can therefore rise.
Surface absorbs sunlight → surface becomes warm
Air in contact with it is heated → expands, becomes less dense
Less dense air rises → convection currents form
Rising air cools → water vapour condenses → clouds → rainfall
Air rushing in to replace the rising air = wind; if the rise is violent = storm
Why the layer above is not stormy: in the stratosphere (12 – 50 km) the ozone layer absorbs UV, so that layer is heated from above and its temperature rises with height. Warm air lying on top of cooler air is a stable arrangement — nothing wants to rise through it. The chapter says this "calms the layer due to the lack of vertical mixing of air, keeping weather confined to the troposphere." That stability is also why aircraft cruise near the top of the troposphere and in the lower stratosphere, above the weather.
Note: the troposphere is also where almost all the atmosphere's water vapour lives — and without water vapour there is no cloud, no rain and no latent heat to power a storm. Its height is greatest above the equator (where heating is strongest) and least above the poles.