Custom xkb map to remap CAPS in sway

gistfile1.txt

In your .config/sway/config:

input * xkb_layout pt-custom

In .xkb/symbols/pt-custom:

default partial alphanumeric_keys modifier_keys
xkb_symbols "basic" {
	include "pt"
	name[Group1] = "Portuguese (Custom)";

    # Make CapsLock Mod4 and Windows key Mod5
    key <CAPS> { [ Hyper_L ] };
    modifier_map Mod4 { Hyper_L };

    key <LWIN> { [ Super_L ] };
    modifier_map Mod5 { Super_L };
};

Instead of include "pt" just include whatever keyboard layout you do use.